XLOC_010401 (rpa2)


Basic Information

Item Value
gene id XLOC_010401
gene name rpa2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 4746588 ~ 4770233 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00020451
ACACGCGCACGCGTACTGTGAGCGCGCGGACTTCGAGACGTGACGTCAAACTGTGCGCTATCAGTCGTGGCGGGAGATTTTCGAGTGTCTTGTCGGTCTGCTTCGCATTCAGAAGAAAAACATTCACGAGTGAAATGTGGAACCAAGGTAAATACGGAGAGGCCAGTATGGCTGGGTACACACAGTCTCCTGGAGGATTCGGGTCACCAGCCGCTTCTCAAGGAGGAGACAAAAAGGGGaggaCACGAGCGCAGCAGATCGTTCCCTGTACTGTATCTCAGCTGTTGTCGGCGGTGCAGGCTGAGGACGTCTTTAAAGTGGGAGAGGTGGAGATCGCACAGGTGACCATTGTTGGTGTGATCCGAAGCACAGATAAATCCACAATCAACATCCAGTACAAGGTGGATGACATGACTGCAGCCCCTATGGATGTCAAGCAGTGGATTGACACAGAGGACATGGGTGTGGATAACTCGGTCATTCCTCCCGGCTCTTACGTCAAAGTCTCTGGCAACCTTCGCTCTTTTCAGAATAACAGGTCTTTGGTGGCGTTCAGCGTTCGAGTGCTGGAGGACATGAATGAAGTGACATCGCACATGCTGGAGGTTGTGAACGCTCATCTCCAGCAGAGCAAACCACAGAACATGGGAGGTGGTGGAGGGATGATGCCAGTGTCTCATACCAGCATGAATAGTATGGGCACCACAGGAGGCTATTCTGGTGCTAACATGATGCTAGTCAATGGCTTGAGTGCCAACCAGAACCAAGTTTTGAGTCTGATCAAGAGCTGTCAAGAGCCTCAGGGAATCAGCATGCATGAACTCAAGCAGAAGCTCAACAGCATGAGCGCCAACGTCATCAGGCAAACTGTGGACTTTCTCAGCAACGAGGGCCACATTTTCTCCACCATCGACGAAGATCACTTCCGGTCAACAGACAATGAAGCCTAACATCCACAAGAGCCTTCATCTTCACAGCTTTCATGACAGAAAACAGTAACAAACTGTACATTTCAGTTCTTTTTGgtcattttaataaaaagcaCACCcattaaaatgtttctttagaCCGCAATGTATTAATTGACATGTGTTAAACCTTGCATTGCGTATTTAGATGCATTAAAAagccttgcttttttttttttgcta
>TCONS_00020452
aacatattaggacagttattataattattttattttaatatataaacaatatatgacTGGGCTTAGCCCGCTTACATGCTTTAACTATTCCAAAACCTATGAGAACGAGCGTAAACGTTTTAATGTAAATTTCAGTGAAGAAAGATTACagaatgtttgttgtttttatttatttttatgctttatttttatttaaaaactattttaacaacATACAAGCTTCTGTGGACTTTTACAGTATACGTGTGGGACTCGCGGCAGATGACACACGCGCACGCGTACTGTGAGCGCGCGGACTTCGAGACGTGACGTCAAACTGTGCGCTATCAGTCGTGGCGGGAGATTTTCGAGTGTCTTGTCGGTCTGCTTCGCATTCAGAAGAAAAACATTCACGAGTGAAATGTGGAACCAAGGTACGTGCTTTAGAAGTCACTTTATTTTGGCTTTAGAGCTGAGTTTACTCTGCTAGTCCGCTAATGAGAGTCAGAAAGCTCTGTTATACAGTGTCAGTGTGATGTCGGTTAGCGGTGTGTTATCAAGGTCTGTTTTTAACGCACTTTAACGTTACTGCCAGTCTGACGGGGTTTTTAACCAATAAGTCGTTTTGATTGAAATATGATATTCATATTTTGGCAGGTAAATACGGAGAGGCCAGTATGGCTGGGTACACACAGTCTCCTGGAGGATTCGGGTCACCAGCCGCTTCTCAAGGAGGAGACAAAAAGGGGaggaCACGAGCGCAGCAGATCGTTCCCTGTACTGTATCTCAGCTGTTGTCGGCGGTGCAGGCTGAGGACGTCTTTAAAGTGGGAGAGGTGGAGATCGCACAGGTGACCATTGTTGGTGTGATCCGAAGCACAGATAAATCCACAATCAACATCCAGTACAAGGTGGATGACATGACTGCAGCCCCTATGGATGTCAAGCAGTGGATTGACACAGAGGACATGGGTGTGGATAACTCGGTCATTCCTCCCGGCTCTTACGTCAAAGTCTCTGGCAACCTTCGCTCTTTTCAGAATAACAGGTCTTTGGTGGCGTTCAGCGTTCGAGTGCTGGAGGACATGAATGAAGTGACATCGCACATGCTGGAGGTTGTGAACGCTCATCTCCAGCAGAGCAAACCACAGAACATGGGAGGTGGTGGAGGGATGATGCCAGTGTCTCATACCAGCATGAATAGTATGGGCACCACAGGAGGCTATTCTGGTGCTAACATGATGCTAGTCAATGGCTTGAGTGCCAACCAGAACCAAGTTTTGAGTCTGATCAAGAGCTGTCAAGAGCCTCAGGGAATCAGCATGCATGAACTCAAGCAGAAGCTCAACAGCATGAGCGCCAACGTCATCAGGCAAACTGTGGACTTTCTCAGCAACGAGGGCCACATTTTCTCCACCATCGACGAAGATCACTTCCGGTCAACAGACAATGAAGCCTAACATCCACAAGAGCCTTCATCTTCACAGCTTTCATGACAGAAAACAGTAACAAACTGTACATTTCAGTTCTTTTTGgtcattttaataaaaagcaCACCcattaaaatgtttctttagaCCGCAATGTATTAATTGACATGTGTTAAACCTTGCATTGCGTATTTAGATGCATTAAAAagccttgcttttttttttttgct
>TCONS_00020453
TGTCGGTCTGCTTCGCATTCAGAAGAAAAACATTCACGAGTGAAATGTGGAACCAAGGTAAATACGGAGAGGCCAGTATGGCTGGGTACACACAGTCTCCTGGAGGATTCGGGTCACCAGCCGCTTCTCAAGGAGGAGACAAAAAGGGGaggaCACGAGCGCAGCAGATCGTTCCCTGTACTGTATCTCAGCTGTTGTCGGCGGTGCAGGCTGAGGACGTCTTTAAAGTGGGAGAGGTGGAGATCGCACAGGACATGGGTGTGGATAACTCGGTCATTCCTCCCGGCTCTTACGTCAAAGTCTCTGGCAACCTTCGCTCTTTTCAGAATAACAGGTCTTTGGTGGCGTTCAGCGTTCGAGTGCTGGAGGACATGAATGAAGTGACATCGCACATGCTGGAGGTTGTGAACGCTCATCTCCAGCAGAGCAAACCACAGAACATGGGAGGTGGTGGAGGGATGATGCCAGTGTCTCATACCAGCATGAATAGTATGGGCACCACAGGAGGCTATTCTGGTGCTAACATGATGCTAGTCAATGGCTTGAGTGCCAACCAGAACCAAGTTTTGAGTCTGATCAAGAGCTGTCAAGAGCCTCAGGGAATCAGCATGCATGAACTCAAGCAGAAGCTCAACAGCATGAGCGCCAACGTCATCAGGCAAACTGTGGACTTTCTCAGCAACGAGGGCCACATTTTCTCCACCATCGACGAAGATCACTTCCGGTCAACAGACAATGAAGCCTAAC

Function

symbol description
rpa2 Predicted to enable single-stranded DNA binding activity. Predicted to be involved in DNA replication; double-strand break repair via homologous recombination; and nucleotide-excision repair. Predicted to act upstream of or within DNA recombination and DNA repair. Predicted to be part of DNA replication factor A complex. Predicted to be active in chromosome, telomeric region; nucleus; and site of double-strand break. Orthologous to several human genes including RPA2 (replication protein A2).

GO:

id name namespace
GO:0006310 DNA recombination biological_process
GO:0000724 double-strand break repair via homologous recombination biological_process
GO:0006260 DNA replication biological_process
GO:0006281 DNA repair biological_process
GO:0006289 nucleotide-excision repair biological_process
GO:0000781 chromosome, telomeric region cellular_component
GO:0035861 site of double-strand break cellular_component
GO:0005634 nucleus cellular_component
GO:0005662 DNA replication factor A complex cellular_component
GO:0003677 DNA binding molecular_function
GO:0003697 single-stranded DNA binding molecular_function

KEGG:

id description
ko03020 RNA polymerase
ko03030 DNA replication
ko03420 Nucleotide excision repair
ko03430 Mismatch repair
ko03440 Homologous recombination
ko03460 Fanconi anemia pathway
ko03021 Transcription machinery
ko03032 DNA replication proteins
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-010131-3 Predicted to enable single-stranded DNA binding activity. Predicted to be involved in DNA replication; double-strand break repair via homologous recombination; and nucleotide-excision repair. Predicted to act upstream of or within DNA recombination and DNA repair. Predicted to be part of DNA replication factor A complex. Predicted to be active in chromosome, telomeric region; nucleus; and site of double-strand break. Orthologous to several human genes including RPA2 (replication protein A2).

Ensembl:

ensembl_id ENSDARG00000037188

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00020451 False 1151 mRNA 0.48 9 4746588 4769967
TCONS_00020452 False 1639 mRNA 0.44 8 4746589 4770233
TCONS_00020453 True 747 mRNA 0.51 8 4746788 4769877

Neighbor

gene id symbol gene type direction distance location
XLOC_010400 smpdl3b coding downstream 24959 4710977 ~ 4721629 (-)
XLOC_010399 NA coding downstream 50965 4685663 ~ 4695623 (-)
XLOC_010398 cyp4t8 coding downstream 106010 4615661 ~ 4640578 (-)
XLOC_010397 arnt coding downstream 136310 4570417 ~ 4610278 (-)
XLOC_010396 NA coding downstream 188091 4554071 ~ 4558497 (-)
XLOC_010402 tpbgb coding upstream 64294 4834527 ~ 4836218 (-)
XLOC_010403 bckdhb coding upstream 243635 5013868 ~ 5105322 (-)
XLOC_010404 LO018201.1 coding upstream 291266 5061499 ~ 5061629 (-)
XLOC_010405 CU694364.1 coding upstream 337065 5107298 ~ 5107417 (-)
XLOC_010406 ttk coding upstream 340222 5110455 ~ 5143176 (-)
XLOC_010626 CR392024.2 misc upstream 16124879 20895112 ~ 20895175 (-)
XLOC_010394 BX927222.1 non-coding downstream 218941 4527481 ~ 4527647 (-)
XLOC_010391 CU469524.2 non-coding downstream 478852 4234727 ~ 4267736 (-)
XLOC_010390 CU469524.1 non-coding downstream 534653 4210477 ~ 4211935 (-)
XLOC_010408 NA non-coding upstream 399542 5169775 ~ 5173443 (-)
XLOC_010409 NA non-coding upstream 682947 5453180 ~ 5588620 (-)
XLOC_010411 NA non-coding upstream 866053 5636286 ~ 5643738 (-)

Expression


Co-expression Network