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COL6A2 (Homo sapiens) in pDNR-Dual (Creator donor/master vector)

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Explanation of Terms


Gene: Gene Symbol:  COL6A2
Gene Name:  collagen, type VI, alpha 2
Sequence              Map: pDNR-Dual_with_human_insert.pdf
Original Clone ID: FLH012397.01L
Keyword: potential short variant
Species: Homo sapiens
Type: cDNA
Vector Name: pDNR-Dual               Format:  FUSION
Source: HIP
Description: Short variant or partial clone comparing to NM_001849
Comments: None
Mutation/
Discrepancy :
No / No
Publications: None
Authors: HIP
HsCD00021941

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AVAILABLE
No restriction
Special MTA: None

 

Insert sequence: 1278nts         Open reading frame : 1 to 1278
Reference Sequence Alignment

ATGACCTACGTGAGGGAGACCTGCGGGTGCTGCGACTGTGAGAAGCGCTGTGGCGCCCTG
GACGTGGTCTTCGTCATCGACAGCTCCGAGAGCATTGGGTACACCAACTTCACACTGGAG
AAGAACTTCGTCATCAACGTGGTCAACAGGCTGGGTGCCATCGCTAAGGACCCCAAGTCC
GAGACAGGGACGCGTGTGGGCGTGGTGCAGTACAGCCACGAGGGCACCTTTGAGGCCATC
CAGCTGGACGACGAACATATCGACTCCCTGTCGAGCTTCAAGGAGGCTGTCAAGAACCTC
GAGTGGATTGCAGGTGGCACCTGGACACCCTCAGCCCTCAAGTTTGCCTACGACCGCCTC
ATCAAGGAGAGCCGGCGCCAGAAGACACGTGTGTTTGCGGTAGTCATCACGGACGGGCGC
CACGACCCTCGGGACGATGACCTCAACTTGCGGGCGCTGTGCGACCGCGACGTCACAGTG
ACGGCCATCGGCATCGGGGACATGTTCCACGAGAAGCACGAGAGTGAAAACCTCTACTCC
ATCGCCTGCGACAAGCCACAGCAGGTGCGCAACATGACGCTGTTCTCCGACCTGGTCGCT
GAGAAGTTCATCGATGACATGGAGGACGTCCTCTGCCCGGACCCTCAGATCGTGTGCCCA
GACCTTCCCTGCCAAACAGAGCTGTCCGTGGCACAGTGCACGCAGCGGCCCGTGGACATC
GTCTTCCTGCTGGACGGCTCCGAGCGGCTGGGTGAGCAGAACTTCCACAAGGCCCGGCGC
TTCGTGGAGCAGGTGGCGCGGCGGCTGACGCTGGCCCGGAGGGACGACGACCCTCTCAAC
GCACGCGTGGCGCTGCTGCAGTTTGGTGGCCCCGGCGAGCAGCAGGTGGCCTTCCCGCTG
AGCCACAACCTCACGGCCATCCACGAGGCGCTGGAGACCACACAATACCTGAACTCCTTC
TCGCACGTGGGCGCAGGCGTGGTGCACGCCATCAATGCCATCGTGCGCAGCCCGCGTGGC
GGGGCCCGGAGGCACGCAGAGCTGTCCTTCGTGTTCCTCACGGACGGCGTCACGGGCAAC
GACAGTCTGCACGAGTCGGCGCACTCCATGCGCAAGCAGAACGTGGTACCCACCGTGCTG
GCCTTGGGCAGCGACGTGGACATGGACGTGCTCACCACGCTCAGCCTGGGTGACCGCGCC
GCCGTGTTCCACGAGAAGGACTATGACAGCCTGGCGCAACCCGGCTTCTTCGACCGCTTC
ATCCGCTGGATCTGCTTG


Coding Sequence Details
Insert Sequence Verified?: Y Verification Method: Sequence Verification
Reference Sequence Annotations:
End on reference sequence 1468
Start on reference sequence 191
Mutations:
None
Discrepancy:
None
5' Linker Sequence:
5P GCGGCCGCATAACTTCGTATAGCATACATTATACGAAGTTATCAGTC
GACACC(ATG-GOI)

3' Linker Sequence:
5p (goi-stop)GGAAGCTTTCTAGACCATTCGTTTGGCGCGCGGGCCC

 

 Recommended Growth Condition:

Distributed in bacterial strain : DH5-alpha T1 phage resistant
Antibiotic Selection: Host Type:  bacterial    Marker:  ampicillin
Bacterial Selection Condition:  100 ug/mL ampicillin
Growth Condition:  Growth with the single antibiotic in LB at 37 degrees is recommended.
Comments:  Commonly used conditions for ampicillin resistant plasmid clones.
Protein Expression Results: None
Recommended expression in: Not Applicable
       DyNA Vector Map

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Vector Name: pDNR-Dual

pDNR-Dual in advanced viewed

Synonyms: None
Sequencing Primer: Forward:  M13F
Reverse:  Unknown
Description: Recombinational donor/master vector with 6xHN tag ORF, T7 and M13 primer sites; ampicillin resistance; restriction enzyme cloning (into) and recombinational cloning (from).
Comments: The position of features were detemined for the empty form of the vector, which is described in detail on the BD/Clontech website. Subcloning into the MCS was performed using the infusion reaction strategy and some restriction sites in the MCS may be lost after an insert is added.
Size (bp): 4938
Parent Vector: None
Empty Vector: None
Properties: Creator, donor (entry), loxP, multiple cloning site, recombinational cloning, with tag/fusion/marker
Author Name: BD Biosciences Clontech
Publications: None
Vector Map:         Vector Sequence:
Sequence:

 



Vector Features:

Type Name Description Start Position End Position
MCS MCS restriction enzyme-type multiple cloning site 45 129
bacterial origin ColE1 ColE1 (pUC-type) origin of replication 4111 4574
negative selection marker SacB SacB negative selection marker gene (sucrose sensitivity) 1057 2972
primer site M13 primer M13 primer sequencing site 4839 4855
primer site T7 primer T7 RNA Pol primer sequencing site 4865 4883
recombination site loxP site loxP recombination site 1015 1048
recombination site loxP site loxP recombination site 9 42
selectable marker CmR chloramphenicol resistance gene ORF (functional only after recombination of insert into vector with promoter) 986 327
selectable marker AmpR ampicillin resistance gene 3103 3963
splice donor site SD site splice donor site 132 136
tag HN 6xHN epitope tag 141 176

 

  • Gene
  • Pathways
  • Protein
  • Clone
  • Organism
  • Genome
  • Reagents

Gene

 

Gene Symbol : COL6A2
Symbol Nomenclature : COL6A2
SYNONYM : PP3610
Designation : collagen VI, alpha-2 polypeptide|collagen alpha-2(VI) chain|human mRNA for collagen VI alpha-2 C-terminal globular domain
Full Nomenclature : collagen, type VI, alpha 2
GENEID : 1292
HGNC : 2212
MIM : 120240
Vega : OTTHUMG00000090489
Target GenBank: BC002484

 

Reference Sequence Alignment

  

HsCD00021941      ------------------------------------------------------------
NM_001849.3       ATGCTCCAGGGCACCTGCTCCGTGCTCCTGCTCTGGGGAATCCTGGGGGCCATCCAGGCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CAGCAGCAGGAGGTCATCTCGCCGGACACTACCGAGAGAAACAACAACTGCCCAGAGAAG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       ACCGACTGCCCCATCCACGTGTACTTCGTGCTGGACACCTCGGAGAGCGTCACCATGCAG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       TCCCCCACGGACATCCTGCTCTTCCACATGAAGCAGTTCGTGCCGCAGTTCATCAGCCAG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CTGCAGAACGAGTTCTACCTGGACCAGGTGGCGCTGAGCTGGCGCTACGGCGGCCTGCAC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       TTCTCTGACCAGGTGGAGGTGTTCAGCCCACCGGGCAGCGACCGGGCCTCCTTCATCAAG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       AACCTGCAGGGCATCAGCTCCTTCCGCCGCGGCACCTTCACCGACTGCGCGCTGGCCAAC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       ATGACGGAGCAGATCCGGCAGGACCGCAGCAAGGGCACCGTCCACTTCGCCGTGGTCATC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       ACCGACGGCCACGTCACCGGCAGCCCCTGCGGGGGCATCAAGCTGCAGGCCGAGCGGGCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CGCGAGGAGGGCATCCGGCTCTTCGCCGTGGCCCCCAACCAGAACCTGAAGGAGCAGGGC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CTGCGGGACATCGCCAGCACGCCGCACGAGCTCTACCGCAACGACTACGCCACCATGCTG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CCCGACTCCACCGAGATCGACCAGGACACCATCAACCGCATCATCAAGGTCATGAAACAC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GAAGCCTACGGAGAGTGCTACAAGGTGAGCTGCCTGGAAATCCCTGGGCCCTCTGGCCCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       AAGGGCTACCGTGGACAGAAGGGTGCCAAGGGCAACATGGGTGAGCCGGGAGAGCCTGGC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CAGAAGGGAAGACAGGGAGACCCGGGCATCGAAGGCCCCATTGGATTCCCAGGACCCAAG
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GGCGTTCCTGGCTTCAAAGGAGAGAAGGGTGAATTTGGAGCCGACGGTCGCAAGGGGGCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CCTGGCCTGGCTGGCAAGAACGGGACCGATGGACAGAAGGGCAAGCTGGGGCGCATCGGA
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CCTCCTGGCTGCAAGGGAGACCCTGGAAACCGGGGCCCCGACGGTTACCCGGGGGAAGCA
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GGGAGTCCAGGGGAGCGAGGAGACCAAGGCGGCAAGGGGGACCCTGGCCGCCCAGGACGC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       AGAGGGCCCCCGGGAGAAATCGGGGCCAAGGGAAGCAAGGGGTATCAAGGCAACAGTGGA
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GCCCCAGGAAGTCCTGGTGTGAAAGGAGCCAAGGGCGGGCCTGGGCCCCGCGGACCCAAA
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GGCGAGCCGGGGCGCAGGGGAGACCCCGGCACCAAGGGCAGCCCAGGCAGCGATGGCCCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       AAGGGGGAGAAGGGGGACCCTGGCCCTGAGGGGCCCCGCGGCCTGGCTGGAGAGGTTGGC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       AACAAAGGAGCCAAGGGAGACCGAGGCTTGCCTGGACCCAGAGGCCCCCAGGGAGCTCTT
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GGGGAGCCCGGAAAGCAGGGATCTCGGGGAGACCCCGGTGATGCAGGACCCCGTGGAGAC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       TCAGGACAGCCAGGCCCCAAGGGAGACCCCGGCAGGCCTGGATTCAGCTACCCAGGACCC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       CGAGGAGCACCCGGAGAAAAAGGCGAGCCCGGCCCACGCGGCCCCGAGGGAGGCCGAGGC
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GACTTTGGCTTGAAAGGAGAACCTGGGAGGAAAGGAGAGAAAGGAGAGCCTGCGGATCCT
                                                                              

HsCD00021941      ------------------------------------------------------------
NM_001849.3       GGTCCCCCTGGTGAGCCAGGCCCTCGGGGGCCAAGAGGAGTCCCAGGACCCGAGGGTGAG
                                                                              

HsCD00021941      ------------------------------------------ATGACCTACGTGAGGGAG
NM_001849.3       CCCGGCCCCCCTGGAGACCCCGGTCTCACGGAGTGTGACGTCATGACCTACGTGAGGGAG
                                                            ******************

HsCD00021941      ACCTGCGGGTGCTGCGACTGTGAGAAGCGCTGTGGCGCCCTGGACGTGGTCTTCGTCATC
NM_001849.3       ACCTGCGGGTGCTGCGACTGTGAGAAGCGCTGTGGCGCCCTGGACGTGGTCTTCGTCATC
                  ************************************************************

HsCD00021941      GACAGCTCCGAGAGCATTGGGTACACCAACTTCACACTGGAGAAGAACTTCGTCATCAAC
NM_001849.3       GACAGCTCCGAGAGCATTGGGTACACCAACTTCACACTGGAGAAGAACTTCGTCATCAAC
                  ************************************************************

HsCD00021941      GTGGTCAACAGGCTGGGTGCCATCGCTAAGGACCCCAAGTCCGAGACAGGGACGCGTGTG
NM_001849.3       GTGGTCAACAGGCTGGGTGCCATCGCTAAGGACCCCAAGTCCGAGACAGGGACGCGTGTG
                  ************************************************************

HsCD00021941      GGCGTGGTGCAGTACAGCCACGAGGGCACCTTTGAGGCCATCCAGCTGGACGACGAACAT
NM_001849.3       GGCGTGGTGCAGTACAGCCACGAGGGCACCTTTGAGGCCATCCAGCTGGACGACGAACGT
                  **********************************************************.*

HsCD00021941      ATCGACTCCCTGTCGAGCTTCAAGGAGGCTGTCAAGAACCTCGAGTGGATTGCAGGTGGC
NM_001849.3       ATCGACTCCCTGTCGAGCTTCAAGGAGGCTGTCAAGAACCTCGAGTGGATTGCGGGCGGC
                  *****************************************************.** ***

HsCD00021941      ACCTGGACACCCTCAGCCCTCAAGTTTGCCTACGACCGCCTCATCAAGGAGAGCCGGCGC
NM_001849.3       ACCTGGACACCCTCAGCCCTCAAGTTTGCCTACGACCGCCTCATCAAGGAGAGCCGGCGC
                  ************************************************************

HsCD00021941      CAGAAGACACGTGTGTTTGCGGTAGTCATCACGGACGGGCGCCACGACCCTCGGGACGAT
NM_001849.3       CAGAAGACACGTGTGTTTGCGGTGGTCATCACGGACGGGCGCCACGACCCTCGGGACGAT
                  ***********************.************************************

HsCD00021941      GACCTCAACTTGCGGGCGCTGTGCGACCGCGACGTCACAGTGACGGCCATCGGCATCGGG
NM_001849.3       GACCTCAACTTGCGGGCGCTGTGCGACCGCGACGTCACAGTGACGGCCATCGGCATCGGG
                  ************************************************************

HsCD00021941      GACATGTTCCACGAGAAGCACGAGAGTGAAAACCTCTACTCCATCGCCTGCGACAAGCCA
NM_001849.3       GACATGTTCCACGAGAAGCACGAGAGTGAAAACCTCTACTCCATCGCCTGCGACAAGCCA
                  ************************************************************

HsCD00021941      CAGCAGGTGCGCAACATGACGCTGTTCTCCGACCTGGTCGCTGAGAAGTTCATCGATGAC
NM_001849.3       CAGCAGGTGCGCAACATGACGCTGTTCTCCGACCTGGTCGCTGAGAAGTTCATCGATGAC
                  ************************************************************

HsCD00021941      ATGGAGGACGTCCTCTGCCCGGACCCTCAGATCGTGTGCCCAGACCTTCCCTGCCAAACA
NM_001849.3       ATGGAGGACGTCCTCTGCCCGGACCCTCAGATCGTGTGCCCAGACCTTCCCTGCCAAACA
                  ************************************************************

HsCD00021941      GAGCTGTCCGTGGCACAGTGCACGCAGCGGCCCGTGGACATCGTCTTCCTGCTGGACGGC
NM_001849.3       GAGCTGTCCGTGGCACAGTGCACGCAGCGGCCCGTGGACATCGTCTTCCTGCTGGACGGC
                  ************************************************************

HsCD00021941      TCCGAGCGGCTGGGTGAGCAGAACTTCCACAAGGCCCGGCGCTTCGTGGAGCAGGTGGCG
NM_001849.3       TCCGAGCGGCTGGGTGAGCAGAACTTCCACAAGGCCCGGCGCTTCGTGGAGCAGGTGGCG
                  ************************************************************

HsCD00021941      CGGCGGCTGACGCTGGCCCGGAGGGACGACGACCCTCTCAACGCACGCGTGGCGCTGCTG
NM_001849.3       CGGCGGCTGACGCTGGCCCGGAGGGACGACGACCCTCTCAACGCACGCGTGGCGCTGCTG
                  ************************************************************

HsCD00021941      CAGTTTGGTGGCCCCGGCGAGCAGCAGGTGGCCTTCCCGCTGAGCCACAACCTCACGGCC
NM_001849.3       CAGTTTGGTGGCCCCGGCGAGCAGCAGGTGGCCTTCCCGCTGAGCCACAACCTCACGGCC
                  ************************************************************

HsCD00021941      ATCCACGAGGCGCTGGAGACCACACAATACCTGAACTCCTTCTCGCACGTGGGCGCAGGC
NM_001849.3       ATCCACGAGGCGCTGGAGACCACACAATACCTGAACTCCTTCTCGCACGTGGGCGCAGGC
                  ************************************************************

HsCD00021941      GTGGTGCACGCCATCAATGCCATCGTGCGCAGCCCGCGTGGCGGGGCCCGGAGGCACGCA
NM_001849.3       GTGGTGCACGCCATCAATGCCATCGTGCGCAGCCCGCGTGGCGGGGCCCGGAGGCACGCA
                  ************************************************************

HsCD00021941      GAGCTGTCCTTCGTGTTCCTCACGGACGGCGTCACGGGCAACGACAGTCTGCACGAGTCG
NM_001849.3       GAGCTGTCCTTCGTGTTCCTCACGGACGGCGTCACGGGCAACGACAGTCTGCACGAGTCG
                  ************************************************************

HsCD00021941      GCGCACTCCATGCGCAAGCAGAACGTGGTACCCACCGTGCTGGCCTTGGGCAGCGACGTG
NM_001849.3       GCGCACTCCATGCGCAAGCAGAACGTGGTACCCACCGTGCTGGCCTTGGGCAGCGACGTG
                  ************************************************************

HsCD00021941      GACATGGACGTGCTCACCACGCTCAGCCTGGGTGACCGCGCCGCCGTGTTCCACGAGAAG
NM_001849.3       GACATGGACGTGCTCACCACGCTCAGCCTGGGTGACCGCGCCGCCGTGTTCCACGAGAAG
                  ************************************************************

HsCD00021941      GACTATGACAGCCTGGCGCAACCCGGCTTCTTCGACCGCTTCATCCGCTGGATCTGCTTG
NM_001849.3       GACTATGACAGCCTGGCGCAACCCGGCTTCTTCGACCGCTTCATCCGCTGGATCTGCTAG
                  **********************************************************:*

Pathways

NCI : Beta1 integrin cell surface interactions
NCI : Integrins in angiogenesis
NCI : Syndecan-1-mediated signaling events
Panther : Inflammation mediated by chemokine and cytokine signaling pathway
Panther : Integrin signalling pathway
Reactome : Assembly of collagen fibrils and other multimeric structures
Reactome : Axon guidance
Reactome : Collagen biosynthesis and modifying enzymes
Reactome : Collagen formation
Reactome : Developmental Biology
Reactome : Extracellular matrix organization
Reactome : NCAM signaling for neurite out-growth
Reactome : NCAM1 interactions
Reactome : Signal Transduction
Reactome : Signaling by PDGF
WikiPathway : Focal Adhesion

Protein

SMART domain : VWA : von Willebrand factor (vWF) type A domain
UniProt : P12110
HPRD : 02110

Clone

Cloning Information : 12397
HIP Master Clone ID : 26596
Original Clone ID : FLH012397.01L

Organism


TAX_ID : 9606
Species Specific ID: 1292

Genome

Chromosome : 21
Map Location : 21q22.3
Ensembl : ENSG00000142173

Reagents

Labome : COL6A2-antibody