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CKN1 (Homo sapiens) in pJP1520 (retroviral expression vector)

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Explanation of Terms


Gene: Gene Symbol:  ERCC8
Gene Name:  excision repair cross-complementing rodent repair deficiency, complementation group 8
Sequence             
Original Clone ID: FLH217879.01X
Keyword: None
Species: Homo sapiens
Type: cDNA
Vector Name: pJP1520               Format:  CLOSED
Source: HIP
Description: None
Comments: None
Mutation/
Discrepancy :
No / Yes
Publications: None
Authors:
HsCD00074864

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AVAILABLE
No restriction
Special MTA: None

 

Insert sequence: 1191nts         Open reading frame : 1 to 1191
Reference Sequence Alignment

ATGCTGGGGTTTTTGTCCGCACGCCAAACGGGTTTGGAGGACCCTCTTCGCCTTCGGAGA
GCAGAGTCAACACGGAGAGTTTTGGGACTGGAATTAAATAAAGACAGAGATGTTGAAAGA
ATCCACGGCGGTGGAATTAACACCCTTGACATTGAACCTGTTGAAGGGAGATACATGTTA
TCAGGTGGTTCAGATGGTGTGATTGTACTTTATGACCTTGAGAACTCCAGCAGACAATCT
TATTACACATGTAAAGCAGTGTGTTCCATTGGCAGAGATCATCCTGATGTTCACAGATAC
AGTGTGGAGACTGTACAGTGGTATCCTCATGACACTGGCATGTTCACATCAAGCTCATTT
GATAAAACTCTGAAAGTATGGGATACAAATACATTACAAACTGCAGATGTATTTAATTTT
GAGGAAACAGTTTATAGTCATCATATGTCTCCAGTCTCCACCAAGCACTGTTTGGTAGCA
GTTGGTACTAGAGGACCCAAAGTACAACTTTGTGACTTGAAGTCTGGATCCTGTTCTCAC
ATTCTACAGGGTCACAGACAAGAAATATTAGCAGTTTCCTGGTCTCCACGTTATGACTAT
ATCTTGGCAACAGCAAGTGCTGACAGTAGAGTAAAATTATGGGATGTGAGAAGAGCATCA
GGATGTTTGATTACTCTTGATCAACATAATGGGAAAAAGTCACAAGCTGTTGAATCAGCA
AACACTGCTCATAATGGGAAAGTTAATGGCTTATGTTTTACAAGTGATGGACTTCACCTC
CTCACTGTTGGTACAGATAATCGAATGAGGCTCTGGAATAGTTCCAATGGAGAAAACACA
CTTGTGAACTATGGAAAAGTTTGTAATAACAGTAAAAAAGGATTGAAATTCACTGTCTCC
TGTGGCTGCAGTTCAGAATTTGTTTTTGTACCATATGGTAGCACCATTGCTGTTTATACA
GTTTATTCAGGAGAACAGATAACTATGCTTAAGGGACATTATAAAACTGTTGACTGCTGT
GTATTTCAGTCAAATTTCCAGGAACTTTATAGTGGTAGCAGAGACTGCAACATTCTGGCT
TGGGTTCCATCCTTATATGAACCAGTTCCTGATGATGATGAGACTACAACAAAATCACAA
TTAAATCCGGCCTTTGAAGATGCCTGGAGCAGCAGTGATGAAGAAGGATAG


Coding Sequence Details
Insert Sequence Verified?: Y Verification Method: Insert was fully sequenced in parent vector; Verification by restriction enzyme digest
Reference Sequence Annotations:
End on reference sequence 1227
Start on reference sequence 37
Mutations:
None
Discrepancy:
c966t
                                

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
Host Type:  bacterial    Marker:  chloramphenicol
Host Type:  mammalian    Marker:  puromycin
Bacterial Selection Condition:  100 ug/mL ampicillin, 34 ug/mL chloramphenicol
Growth Condition:  Growth with the double antibiotic in LB supplemented with 7% sucrose at 37 degrees is recommended.
Comments:  Conditions for Creator-type vectors in with insert (recombined) form. Selection differs for the unrecombined, empty form of the vectors.
Protein Expression Results: None
Recommended expression in: Not Applicable
       DyNA Vector Map

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Vector Name: pJP1520

pJP1520 in advanced viewed

Synonyms: None
Sequencing Primer: Forward:  JPO113
Reverse:  Unknown
Description: Retroviral expression vector with CMV promoter, MMV-type 5p and 3p LTRs; amp resistance (puromycin for mammalian selection); recombinational cloning.
Comments: One in a series of pJP# vectors that includes puroR, blastR, hygR vectors made by J. Pearlberg at HIP
Size (bp): 7894
Parent Vector: None
Empty Vector: None
Properties: Creator, acceptor (destination), loxP, mammalian expression, mammalian transduction, retroviral vector
Author Name: Ed Harlow
Joseph Pearlberg
Publications: None
Vector Map:         Vector Sequence:
Sequence:

 



Vector Features:

Type Name Description Start Position End Position
bacterial origin ori bacterial origin of replication 5659 6341
gene fragment gag/pol/env non-functional gag/pol/env for packaging efficiency 1871 2644
primer JPO113 forward sequencing primer: GCGGTTTTGGCAGTACATCAATGGGCG 3555 3581
primer site PBSQ primer binding sequence (glutamine tRNA primer binding site) 1140 1156
promoter bacterial bacterial promoter (for chlR ORF in Creator-type inserts) 3879 4005
recombination site LoxP LoxP site for recombinational cloning 3651 3684
selectable marker AmpR ampicillin resistance gene (beta-lactamase) 6237 7094
viral LTR 5p LTR 5p viral LTR (MPSV U3, R, U5) 550 1139
viral LTR 3p LTR 3p viral LTR (MPSV U3, R, U5) 3962 4551

 

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

Gene

 

Gene Symbol : ERCC8
Symbol Nomenclature : ERCC8
SYNONYM : CKN1; CSA; UVSS2
Designation : Cockayne syndrome WD-repeat protein CSA|DNA excision repair protein ERCC-8|cockayne syndrome WD repeat protein CSA
Full Nomenclature : excision repair cross-complementing rodent repair deficiency, complementation group 8
GENEID : 1161
HGNC : 3439
MIM : 609412
Vega : OTTHUMG00000097741
Target GenBank: U28413

 

Reference Sequence Alignment

  

HsCD00074864      ATGCTGGGGTTTTTGTCCGCACGCCAAACGGGTTTGGAGGACCCTCTTCGCCTTCGGAGA
NM_000082.3       ATGCTGGGGTTTTTGTCCGCACGCCAAACGGGTTTGGAGGACCCTCTTCGCCTTCGGAGA
                  ************************************************************

HsCD00074864      GCAGAGTCAACACGGAGAGTTTTGGGACTGGAATTAAATAAAGACAGAGATGTTGAAAGA
NM_000082.3       GCAGAGTCAACACGGAGAGTTTTGGGACTGGAATTAAATAAAGACAGAGATGTTGAAAGA
                  ************************************************************

HsCD00074864      ATCCACGGCGGTGGAATTAACACCCTTGACATTGAACCTGTTGAAGGGAGATACATGTTA
NM_000082.3       ATCCACGGCGGTGGAATTAACACCCTTGACATTGAACCTGTTGAAGGGAGATACATGTTA
                  ************************************************************

HsCD00074864      TCAGGTGGTTCAGATGGTGTGATTGTACTTTATGACCTTGAGAACTCCAGCAGACAATCT
NM_000082.3       TCAGGTGGTTCAGATGGTGTGATTGTACTTTATGACCTTGAGAACTCCAGCAGACAATCT
                  ************************************************************

HsCD00074864      TATTACACATGTAAAGCAGTGTGTTCCATTGGCAGAGATCATCCTGATGTTCACAGATAC
NM_000082.3       TATTACACATGTAAAGCAGTGTGTTCCATTGGCAGAGATCATCCTGATGTTCACAGATAC
                  ************************************************************

HsCD00074864      AGTGTGGAGACTGTACAGTGGTATCCTCATGACACTGGCATGTTCACATCAAGCTCATTT
NM_000082.3       AGTGTGGAGACTGTACAGTGGTATCCTCATGACACTGGCATGTTCACATCAAGCTCATTT
                  ************************************************************

HsCD00074864      GATAAAACTCTGAAAGTATGGGATACAAATACATTACAAACTGCAGATGTATTTAATTTT
NM_000082.3       GATAAAACTCTGAAAGTATGGGATACAAATACATTACAAACTGCAGATGTATTTAATTTT
                  ************************************************************

HsCD00074864      GAGGAAACAGTTTATAGTCATCATATGTCTCCAGTCTCCACCAAGCACTGTTTGGTAGCA
NM_000082.3       GAGGAAACAGTTTATAGTCATCATATGTCTCCAGTCTCCACCAAGCACTGTTTGGTAGCA
                  ************************************************************

HsCD00074864      GTTGGTACTAGAGGACCCAAAGTACAACTTTGTGACTTGAAGTCTGGATCCTGTTCTCAC
NM_000082.3       GTTGGTACTAGAGGACCCAAAGTACAACTTTGTGACTTGAAGTCTGGATCCTGTTCTCAC
                  ************************************************************

HsCD00074864      ATTCTACAGGGTCACAGACAAGAAATATTAGCAGTTTCCTGGTCTCCACGTTATGACTAT
NM_000082.3       ATTCTACAGGGTCACAGACAAGAAATATTAGCAGTTTCCTGGTCTCCACGTTATGACTAT
                  ************************************************************

HsCD00074864      ATCTTGGCAACAGCAAGTGCTGACAGTAGAGTAAAATTATGGGATGTGAGAAGAGCATCA
NM_000082.3       ATCTTGGCAACAGCAAGTGCTGACAGTAGAGTAAAATTATGGGATGTGAGAAGAGCATCA
                  ************************************************************

HsCD00074864      GGATGTTTGATTACTCTTGATCAACATAATGGGAAAAAGTCACAAGCTGTTGAATCAGCA
NM_000082.3       GGATGTTTGATTACTCTTGATCAACATAATGGGAAAAAGTCACAAGCTGTTGAATCAGCA
                  ************************************************************

HsCD00074864      AACACTGCTCATAATGGGAAAGTTAATGGCTTATGTTTTACAAGTGATGGACTTCACCTC
NM_000082.3       AACACTGCTCATAATGGGAAAGTTAATGGCTTATGTTTTACAAGTGATGGACTTCACCTC
                  ************************************************************

HsCD00074864      CTCACTGTTGGTACAGATAATCGAATGAGGCTCTGGAATAGTTCCAATGGAGAAAACACA
NM_000082.3       CTCACTGTTGGTACAGATAATCGAATGAGGCTCTGGAATAGTTCCAATGGAGAAAACACA
                  ************************************************************

HsCD00074864      CTTGTGAACTATGGAAAAGTTTGTAATAACAGTAAAAAAGGATTGAAATTCACTGTCTCC
NM_000082.3       CTTGTGAACTATGGAAAAGTTTGTAATAACAGTAAAAAAGGATTGAAATTCACTGTCTCC
                  ************************************************************

HsCD00074864      TGTGGCTGCAGTTCAGAATTTGTTTTTGTACCATATGGTAGCACCATTGCTGTTTATACA
NM_000082.3       TGTGGCTGCAGTTCAGAATTTGTTTTTGTACCATATGGTAGCACCATTGCTGTTTATACA
                  ************************************************************

HsCD00074864      GTTTATTCAGGAGAACAGATAACTATGCTTAAGGGACATTATAAAACTGTTGACTGCTGT
NM_000082.3       GTTTACTCAGGAGAACAGATAACTATGCTTAAGGGACATTATAAAACTGTTGACTGCTGT
                  ***** ******************************************************

HsCD00074864      GTATTTCAGTCAAATTTCCAGGAACTTTATAGTGGTAGCAGAGACTGCAACATTCTGGCT
NM_000082.3       GTATTTCAGTCAAATTTCCAGGAACTTTATAGTGGTAGCAGAGACTGCAACATTCTGGCT
                  ************************************************************

HsCD00074864      TGGGTTCCATCCTTATATGAACCAGTTCCTGATGATGATGAGACTACAACAAAATCACAA
NM_000082.3       TGGGTTCCATCCTTATATGAACCAGTTCCTGATGATGATGAGACTACAACAAAATCACAA
                  ************************************************************

HsCD00074864      TTAAATCCGGCCTTTGAAGATGCCTGGAGCAGCAGTGATGAAGAAGGATAG
NM_000082.3       TTAAATCCGGCCTTTGAAGATGCCTGGAGCAGCAGTGATGAAGAAGGATGA
                  *************************************************..

Pathways

Reactome : DNA Repair
Reactome : Dual incision reaction in TC-NER
Reactome : Formation of transcription-coupled NER (TC-NER) repair complex
Reactome : Nucleotide Excision Repair
Reactome : Transcription-coupled NER (TC-NER)

Protein

SMART domain : WD40 : WD40 repeats
UniProt : Q13216
HPRD : 07523

Clone

Cloning Information : 217879
HIP Master Clone ID : 33787
Original Clone ID : FLH217879.01X

Organism


TAX_ID : 9606
Species Specific ID: 1161

Genome

Chromosome : 5
Map Location : 5q12.1
Ensembl : ENSG00000049167

Reagents

Labome : ERCC8-antibody