XLOC_017485 (hnrnpub)


Basic Information

Item Value
gene id XLOC_017485
gene name hnrnpub
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 35058634 ~ 35070476 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00034742
TGAATTGTTTTGCCGGTGGACAGACGCAGAATCACCGCGGCTGTGTGCAACTCACAGAAGCGAAGCGGCCGTCGGCTCCCCTGCATTGCTATATTCAAACAACCGAGTCTCTCTGTTTTTATTAGACCATCTACGCTAAATCGACAAGATGAGTGAAATCAACGTGAAAAAGCTTAAGGTGAACGAGCTGAAGGACGAGCTAAAGAAGCGGCAGCTCTCTGACAAGGGGTTGAAGGCCGAGCTCATGGAGCGTCTGCAGGCCGCGCTCGACGCAGAGGCCCAGGCCCAAGAGGAAGAAACGACCGCGCCAGGGACTACAGAAGGTAGTAAGGTAGGAAACGATGCCGATGGAAACGGCGTTGCAGCCGAACAAGAAGGTACGGGTGAAGAAGAGCCGGAGGGGGAAAACATGGAGGCCGAGGAGCAGAATGGGGAAGGAGATGAAGCCGCCGGTCAGGACGACGAAAtgggagaggaggaggaggaggacgacgacgacgacgacgCCGGGGAGGAAATAGACAAAGCCTTAgacgatgaagatgatgaagaagaCGATATCATTGACAAAATCGACGTTGAAGACGgGGATGCGGACAAAGACAGCAGTGCTGATCAGAAGAATAAGAAGGGTGTTAAGAGACGCCGAGAGGATCATGGAAGGGGCTACTTTGAATTTATTGAAGAAAGCAAATACAGCCGGACCAAGTCTCCTCAGCCGCCTTTGGAGGAAGTGGATGAAGAGTTTGATGACACCCTGGTCTGCTTGGATCcatACAATTGTGACCTTCACTTCAAAGTGTCCCGGAACCGTTACAGTGCCTCCTCTCTTACCATGGAGAGTTTTGCTCACCTTTGGGCAGGTGGCCGTGCATCTTATGGTGTAAACAAGGGCAAAGTCTGCTTTGAAATGAAGGTCACTGAGAAAACCCCAATCAAGCATTTAAACAGCAAAATCATGGACTTCCATGATGTCCATATTGGCTGGTCTCTGGCTAATGGGTGTCTGTCACTAGGTGAGGAGGAGTTTTCTTACTCCTATTCTGACAAAGGGAAGAAGGCTTCAAACTGTGTGACTGAAGACTACGGGGAGGGCTTTGATGAAAATGATGTCATCGGCTGCTTCATTaattTCGAGGCTGATGAAGTGGAGATTTCCTTTTCTAAAAATGGCAATGACCTTGGTGTGGCTTTCAAGGTCAATAAGGAGTCGTTGGCTGACAGAGCCCTGTTCCCCCATGTTCTTTGTCACAACTGTACTGTTGAGTTCAATTTTGGTCAGAACGAGACTCCGTTCTTCCCTAAGTTGGAGGACTTCACCTTTATGCAGCAGATTCCTCTGGAAGAGCGTATCAGAGGACCCAAAGGACCTGTGGCCAAGAAAGACTGCGAGGTGATTGTCATGGTCGGCCTTCCTGGATCTGGAAAAACTACCTGGGtagttaaacatgttgaagaaaacCCTGGGAAGTACAACATCCTCAGCACCAACACCGTCTTGGAGAAATTGATGATTAACAGCGTAAAGAGGCAAAATAAAGACATAACAAAACTCATGGCCATTTCCCAGCGTGTTCCTTTTTACCTGGGCAAGTTGATTGAAATTGCTGCCCGCAAAAAAAGACACTATATTTTGGACCAGACGAACGTCTCTTCAGCAGCCCAAAGAAGGAAGATGTGTCTGTTTGCTGGTTTCCAGCGCAAAGCCGTGGTGGTCTTTCCCACAGATGAGAACTTAAAGGAGAGAGCGCAGAAGAAGGCAGAAGCGGATGGTAAAGATATACCCGAGCACGCCCTACTCAAAATGAAAGCTCTCTACACGCTTCCAGAACAAGGGGACTGCTTTTCAGAGGTCACCTATGTTGAGCTGCAGAAGGACGAGGCCTCCAAGCTTTTGGAGAAGTACAAGGAAGAGAGTAAGAATGCTTTGCCTCCAGAGAAGAAGCCCAACCAGGGACCCCCAACTCCCAAACGGGGATCCCGCCGAGGAAGAGGGCAAAAGAACCAGTTCAACAggagtggtggtggtggtggtggtggtggtcaAGGAAACCGTGGAGGCAGGGGTGGATTCCAGCCCCGAGGAAACTACAGAGCGTTGCTTGCACCACCTCGTGTGAGCGGATTTGATCGTCGCCCGCGGGGTTACATTCTGCCacctccaccaccaccaccagtctacCGAGGTTATCCTAGCAGAGACGGTTACAACAGAGGAGGGTCTGGTGGAATGCAGAGTAGAGGAATGTCTCCGCGCGGTGGACAAATGAGGGGCAACATGGCCAGCAGAGGTGGTGGAATGAGCCGTGGAGGACATGCCAACAGAGGAGGAAACATGCACCGCGGAGGTGGACAAGGTGGTCCCAACCACAGAGGACACTACCAGCAGAAATTCCACGGCAGAGGAGGCCACCAGCAGAATCGTGGAGGATATGGCAACAAGAACAGCTCTTTTGCCCAAGCCTTCAACCAGAGCTGGCAACAAGGGTTCTGGAACCAGAAGCCATGGAATCAACAGTACCATCCAGGATATTATTGAATGCACATTTGTATTAAAGACTCGTGGCCTGTGGTGTGcagccactgaaaaaaaaaaaaaaccatccaCTTTTATGGTccttgtttaaaataattttttaaaaaagatagTCCATTTTTAAATAAGAGAAGCAAGTGGCAAACAAACATTCCGCCTCTGAAGTAAACAGTCTACGTTCAACGGATGTGTGATGGCTTCACGCTCAGATTTTTTCGTAGAAAGGTTTTCCTTCCCCTTTTATTTTCTATCACAGCTTTGATTGATATTGTTCTATCACTGCATTTCTCTTGTGCGAGTGATGCTTTGAATTTCAGGGTTGTGCATTTTTATtctgtaaaatgtcatttttttacacaatgtaaattattattttattatttgtcaaGATTTTTTTGTGAAAGACTTGTGTTCTAGTGTGAAAGAATCCATATATAGTCTTTTTGAGGCTTTTGTCATTAATCATTAATGCAGCAACTTCATGTTTAGTGCAGGAGTGAAAATATTGTTCTCgatttttactttttactgttTGTTTAAGCCCAGACTGTAACGGTTACTTCATAGGTTTGCAATAAATGACGTGCTTGCTTTTCTATGACCTTTCATTATGGCTTTTGACTGATACCTTGAACATTTGATTTCAAACAGCCTTTGAATGtcaattggtttattctcagacTGTCCTTTTTTTAATGGTCTTTCTGTCTTaaatttaaaatggttttagttGATGTGTGGCTATTTTCTTAATGCATTGCTTTTTTCACAAGTAAttttatgcctttttaaatctTAAGTACGATGAAACGTGTGTATTCATTAAGCATTTGATTGTGCTTACTGCATTACATAAGTCAACTCATATCCAGTAACTTCATAAAAATTGTGCACTAAGCTCATCAGCTCATTTTGTGGCGATACATTATAAAATATCCTTGCAAAACCTTTATCCCAAGCTAATCGTGTTATTTTTATCTGTAACCACTATATTGATCTGTTTAATAATGCAACTAATCTATTTCCAGGGCACATAATATGCATTAGACTATATTTAGACTCGTTTGTTCCTGGATCctttttcttttgcattaatttgTCAAATAGGGATTGAATATTGATAAATCATCATCTAATAGCCACCACATAAACAAGTTTTGTGAAATGCTTCAATGTTACATGGAGTTAAGGTTATCATATCAAAATTTCTGGATTAAATCATTTAAGGGATTTTAATTATAACCTGCATTTTGATACTCGTTATTCTGGCCACAATAATATCACATCTACATCCGTCCTGATTTTCATGAAGACTAGCCCTTGATGTTTTGAATTGATATATTTCTTATCGAGTGCCAAATGGCCAAAGAAAAAGGGCAGCtatttttaacttaaaattgGTGTAATTTATCCTGATGTAATAAGTTTAAGTGGAATATTTCGTTTGACTATAGCAGTAATTTATTTTGGGGAATGTTTTCTTCTCTAATACTTTTGAATTAAATATTGACCCCGTCCTTAAATAAaacaagtgattttttttctaactGAATGTCATGGCATGAGAGATTTTGTGATGATAGTGTTTTACTACAGAGACCTTGCTTGTGCAAAATGTGCTATTTTGAGGATGGACGTTTCTTTtctaaattgtactaaaatgtggCATTGTGTTATCGGGAGACTGCAGTCGGTATGTATTTTGGGGTCGAGTTCGTTTTTCAACGAGATGAATGTTAAATTGTTACATAATGTAAGGAAATGTGTCATTAAATGATGTAATACACCTCTGAggtgaatttgttttattttta
>TCONS_00034743
ttttttttttttttatatgtgaaaTGTTCTGACCAGGAGTATTAAATTGTTAGAAACTGTTCAAAGTTAGACTAACAAATTTGTTTATTGGTTCTAGACAATTGTGACCTTCACTTCAAAGTGTCCCGGAACCGTTACAGTGCCTCCTCTCTTACCATGGAGAGTTTTGCTCACCTTTGGGCAGGTGGCCGTGCATCTTATGGTGTAAACAAGGGCAAAGTCTGCTTTGAAATGAAGGTCACTGAGAAAACCCCAATCAAGCATTTAAACAGCAAAATCATGGACTTCCATGATGTCCATATTGGCTGGTCTCTGGCTAATGGGTGTCTGTCACTAGGTGAGGAGGAGTTTTCTTACTCCTATTCTGACAAAGGGAAGAAGGCTTCAAACTGTGTGACTGAAGACT

Function

symbol description
hnrnpub Predicted to enable several functions, including basal RNA polymerase II transcription machinery binding activity; nucleic acid binding activity; and promoter-specific chromatin binding activity. Predicted to be involved in several processes, including RNA localization to chromatin; regulation of cell cycle process; and regulation of nucleobase-containing compound metabolic process. Predicted to be located in nucleus and viral nucleocapsid. Predicted to be part of CRD-mediated mRNA stability complex; catalytic step 2 spliceosome; and telomerase holoenzyme complex. Predicted to be active in several cellular components, including chromosome; microtubule cytoskeleton; and nuclear lumen. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 54. Orthologous to human HNRNPU (heterogeneous nuclear ribonucleoprotein U).

GO:

id name namespace
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:1902425 positive regulation of attachment of mitotic spindle microtubules to kinetochore biological_process
GO:1901673 regulation of mitotic spindle assembly biological_process
GO:0032211 negative regulation of telomere maintenance via telomerase biological_process
GO:0070934 CRD-mediated mRNA stabilization biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:1990280 RNA localization to chromatin biological_process
GO:1902275 regulation of chromatin organization biological_process
GO:0000776 kinetochore cellular_component
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0016363 nuclear matrix cellular_component
GO:0098577 inactive sex chromosome cellular_component
GO:0090575 RNA polymerase II transcription regulator complex cellular_component
GO:0005813 centrosome cellular_component
GO:1990498 mitotic spindle microtubule cellular_component
GO:0005634 nucleus cellular_component
GO:0036464 cytoplasmic ribonucleoprotein granule cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0016607 nuclear speck cellular_component
GO:0070937 CRD-mediated mRNA stability complex cellular_component
GO:0000228 nuclear chromosome cellular_component
GO:0005697 telomerase holoenzyme complex cellular_component
GO:1990023 mitotic spindle midzone cellular_component
GO:0043021 ribonucleoprotein complex binding molecular_function
GO:0099122 RNA polymerase II C-terminal domain binding molecular_function
GO:0017069 snRNA binding molecular_function
GO:0017130 poly(C) RNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0003714 transcription corepressor activity molecular_function
GO:0003723 RNA binding molecular_function
GO:0034046 poly(G) binding molecular_function
GO:0001097 TFIIH-class transcription factor complex binding molecular_function
GO:1990841 promoter-specific chromatin binding molecular_function
GO:0036002 pre-mRNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-6422 Predicted to enable several functions, including basal RNA polymerase II transcription machinery binding activity; nucleic acid binding activity; and promoter-specific chromatin binding activity. Predicted to be involved in several processes, including RNA localization to chromatin; regulation of cell cycle process; and regulation of nucleobase-containing compound metabolic process. Predicted to be located in nucleus and viral nucleocapsid. Predicted to be part of CRD-mediated mRNA stability complex; catalytic step 2 spliceosome; and telomerase holoenzyme complex. Predicted to be active in several cellular components, including chromosome; microtubule cytoskeleton; and nuclear lumen. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 54. Orthologous to human HNRNPU (heterogeneous nuclear ribonucleoprotein U).

Ensembl:

ensembl_id ENSDARG00000004735

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00034742 False 4350 mRNA 0.43 13 35058634 35070476
TCONS_00034743 True 406 processed_transcript 0.41 3 35062806 35063981

Neighbor

gene id symbol gene type direction distance location
XLOC_017484 NA coding upstream 44132 35012634 ~ 35014502 (+)
XLOC_017483 BX470246.1 coding upstream 72852 34985123 ~ 34985782 (+)
XLOC_017482 NA coding upstream 92641 34962154 ~ 34965993 (+)
XLOC_017481 snap25a coding upstream 102404 34913069 ~ 34956230 (+)
XLOC_017480 ankef1a coding upstream 156429 34868933 ~ 34902205 (+)
XLOC_017486 cdc42bpab coding downstream 14748 35085224 ~ 35206280 (+)
XLOC_017487 fbxo16 coding downstream 137544 35208020 ~ 35254641 (+)
XLOC_017488 fam49a coding downstream 184927 35255403 ~ 35298023 (+)
XLOC_017489 BX511024.1 coding downstream 311962 35382438 ~ 35429737 (+)
XLOC_017490 BX510920.1 coding downstream 352222 35422698 ~ 35422827 (+)
XLOC_017475 NA non-coding upstream 292191 34761743 ~ 34766443 (+)
XLOC_017476 NA non-coding upstream 292817 34764450 ~ 34765817 (+)
XLOC_017495 NA non-coding downstream 642126 35712602 ~ 35827205 (+)
XLOC_017496 NA non-coding downstream 786923 35857399 ~ 35980452 (+)
XLOC_017499 BX000468.1 non-coding downstream 1209572 36280048 ~ 36280164 (+)

Expression


Co-expression Network