XLOC_025615 (cpsf4)


Basic Information

Item Value
gene id XLOC_025615
gene name cpsf4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 40289418 ~ 40295255 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00050455
CACACTCGAGCAGCGCTGTGGAAGTGGACGTTTCTGAAaccaactgtttatttacaatgtttttctgCTTTACCGGTTCACCCTTGCGCTTTATTAAAAAACGTTTACATAGATAATATATCTGCGTGCTTTTTCAGCCATTCTCTCTTTTTTACGTCTGATATTAAACCACAACAAAGCCAAACTGATAACTTGTTAGCCATTAAGACTTGCTTTACTTTTCTGATCAAGTGTTGTAACGAGAAGAGGTTCAGCTGctggttaaaatattaataatatactcAATATAATTCCAAAATGCAGGAATTAATCGCCACTGTCGATCACATCAAGTTTGATCTTGAAATCGCTGTTGAACAACAATTAGGCGCTCAGCCGTTGCCATTTCCAGGAATGGATAAATCTGGCGCTGCTGTATGCGAGTACTTCATGAGAGCTGCTTGTATGAAAGGTGGAATGTGTCCCTTCAGACACATCAGTGGAGAAAAGACTGTGGTGTGCAAGCATTGGCTTAGAGGCTTATGCAAGAAAGGAGATCAATGTGAATTTTTACACGAGTACGACATGACTAAGATGCCCGAGTGTTATTTCTACTCTAAATTTGGGGAGTGCAGTAATAAAGAGTGTCCATTCTTGCACATTGACCCAGAATCTAAGATTAAAGATTGCCCGTGGTATGATAGGGGTTTTTGTAAACATGGTCCGGATTGCAGGCACAGACACACTAGAAGAGTCATTTGTGTAAATTACCTGGTTGGCTTTTGTCCAGAGGGCAAGTCATGCAAATTTATGCACCCAAGATTTGAACTTCCGATGGGTGCGACTGAACAGCCACCACTGCCACAACAAGTACAGACTCAGCAAAagCAGCAAAACATGCAGCCCATGAACAGGTCATCACAGTCACTCATCCAGTTAACCAACCCCAACATCAGCAACAACAACCACCAGAGAATTCCAAACGCTGTAGGGATAGTGCACTCTAACAGCCACATGGGTGGAGCTCGTGGCCCTCGCCCGCTGGACCAAGTTACATGTTACAAGTGTGGTGAAAAGGGCCATTACGCAAACAAATGCACAAAAGGACACCTGGCGTTTTTGAGTGGACAGTGAAGCTTTCTGTAAAAAGGATCTCCAATAAATGTGGTCATCACGTGAGGTATTCGATTCCTGGTACATTACCCTCTCACTGAGAAGGGTGTAGTTGAGTGACATAAATGTGGCTCTACCTCACCACCATCACGTATGCCAAGCGCATCACAGTCACATAACACTTTCAACAGGTAGAACACATCAGTAAAAGATTTTTATattgagttttgtttttctttcacaTGAAACCTTACATACCCGATTTCATGCTTTGAAACGTGAATCTCTGCTATTTTATTTAGAGCTGGAAGATTTTTTgaatgcttaaagggatagttcacccaaaaatgacaataacctgcatgtttttttgtttatttcaaatgttgaacacaaaaggagatattttaaagaattttggtTGCTGTCACCCATTtccttccatagtagggaaaaaattactatggaagAGGATGTCAACAactaacatttctcaaaatatcttattttgtgtttaacagaagaaagaaattgaaATAGATTTTGAACAAGggaaagtaaatgatggcagaatgttcttctttggtgaactatccctttacattttaaagtgataAAGCAAAATATATGAAAGTCTTTTGGGGAACTTTTGGCAATAGCAGCCAGTGTGATCTGAAATTGAAGAGCACCGTTTTGCAGCATCAAAATGGCttgtttatataaattacatttaaaacagatgTTTGGGTTGTACTTACAATAAAGATTATCTGGATTTATGA

Function

symbol description
cpsf4 Predicted to enable nucleic acid binding activity and zinc ion binding activity. Acts upstream of or within eye photoreceptor cell development. Predicted to be located in nucleus. Is expressed in unfertilized egg. Orthologous to human CPSF4 (cleavage and polyadenylation specific factor 4).

GO:

id name namespace
GO:0042462 eye photoreceptor cell development biological_process
GO:0098789 pre-mRNA cleavage required for polyadenylation biological_process
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko03015 mRNA surveillance pathway
ko05164 Influenza A
ko03021 Transcription machinery
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-990415-180 Predicted to enable nucleic acid binding activity and zinc ion binding activity. Acts upstream of or within eye photoreceptor cell development. Predicted to be located in nucleus. Is expressed in unfertilized egg. Orthologous to human CPSF4 (cleavage and polyadenylation specific factor 4).

Ensembl:

ensembl_id ENSDARG00000020217

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00050455 True 1874 mRNA 0.39 8 40289418 40295255

Neighbor

gene id symbol gene type direction distance location
XLOC_025614 bud31 coding upstream 1577 40284598 ~ 40287841 (+)
XLOC_025613 smcr8a coding upstream 30468 40255408 ~ 40258950 (+)
XLOC_025612 syngr3a coding upstream 109217 40170216 ~ 40180201 (+)
XLOC_025611 gfer coding upstream 120936 40162399 ~ 40168482 (+)
XLOC_025610 ccdc97 coding upstream 322006 39958407 ~ 39967412 (+)
XLOC_025617 slc29a4 coding downstream 20155 40315410 ~ 40349733 (+)
XLOC_025618 NA coding downstream 56418 40351673 ~ 40352408 (+)
XLOC_025619 NA coding downstream 108914 40404169 ~ 40404939 (+)
XLOC_025620 tnrc18 coding downstream 112097 40407352 ~ 40488846 (+)
XLOC_025621 fscn1a coding downstream 281192 40576447 ~ 40589489 (+)
XLOC_025429 BX649540.1 misc upstream 10040382 30248739 ~ 30249036 (+)
XLOC_025609 BX649356.1 non-coding upstream 404462 39884819 ~ 39884956 (+)
XLOC_025606 NA non-coding upstream 657204 39626833 ~ 39632214 (+)
XLOC_025605 NA non-coding upstream 665493 39618568 ~ 39623925 (+)
XLOC_025601 BX537342.1 non-coding upstream 724919 39555762 ~ 39564499 (+)
XLOC_025599 NA non-coding upstream 1024901 39258810 ~ 39264517 (+)
XLOC_025623 BX649559.1 non-coding downstream 496465 40791720 ~ 40794879 (+)
XLOC_025627 NA non-coding downstream 603369 40898624 ~ 40902157 (+)
XLOC_025628 NA non-coding downstream 649785 40945040 ~ 40948999 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000046_03946243_03948935 CPSF4 coding CI01000046 null 3946230 ~ 3949544 (-)