XLOC_007722 (polr1d)


Basic Information

Item Value
gene id XLOC_007722
gene name polr1d
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007125.7
NCBI id CM002898.2
chromosome length 52660232
location 9077314 ~ 9085349 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00015126
AACAGCAACCGCAGCATGGCTGAGCTTGGACAGAAACACGCGCTGGAGATGGTCCGGACGGATGGAGCAGATGAGGGTTGTGTAACATTTGTGCTCAATGAAGAGGATCACACACTTGGAAACTCCCTCAGATACATGATCATGAAGAGTCAGGACGTGGAATTCTGTGGATACAGCATCACACACCCATCAGAAAGCAAAATCAACTTCAGGATACAGACGCGAGATGGAGTTCCAGCATCTGAACCTCTGCGCAATGGGTTGAACAATCTGACAGATGTCTGCAAACATGTTTTGCAAACGTTTGAGGCACGGATGAAAGAATTCAAGGAGCAAGAAGAATCCATGACATGAAGAGCACAACAACACTTGGCGAATGCTGAGCGACGTTCCCAAAATATAAGTTGTAGAAATGTTTTGTATGTATGAACTTGTATATCAGTGAGATTTATTTTTGTGAGCATGTGGACACTGGTAAATTGTCATGCAGTGTAGTCATAATAATAGcaacagaatatttattttagaatatcATAAGTATGCTATAAGATCAAAAATtaggaatgtttttaaaatgatgcaTCAAATGAGGAAGTTTCTGTTTTGAATGCAGATCATTTATTTTGACGTATACcatttctgaaaaataaaaatggtataaAAATGA

Function

symbol description
polr1d Predicted to enable DNA binding activity and protein dimerization activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Acts upstream of or within cartilage development; embryonic viscerocranium morphogenesis; and ribosome biogenesis. Predicted to be located in nucleus. Predicted to be part of RNA polymerase I complex and RNA polymerase III complex. Is expressed in eye; lens; midbrain hindbrain boundary; optic tectum; and pharyngeal arch. Used to study Treacher Collins syndrome. Human ortholog(s) of this gene implicated in Treacher Collins syndrome 2. Orthologous to human POLR1D (RNA polymerase I and III subunit D).

GO:

id name namespace
GO:0006351 transcription, DNA-templated biological_process
GO:0051216 cartilage development biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0005666 RNA polymerase III complex cellular_component
GO:0005736 RNA polymerase I complex cellular_component
GO:0003899 DNA-directed 5'-3' RNA polymerase activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0046983 protein dimerization activity molecular_function

KEGG:

id description
ko03020 RNA polymerase
ko04623 Cytosolic DNA-sensing pathway
ko03021 Transcription machinery

ZFIN:

id description
ZDB-GENE-040930-4 Predicted to enable DNA binding activity and protein dimerization activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Acts upstream of or within cartilage development; embryonic viscerocranium morphogenesis; and ribosome biogenesis. Predicted to be located in nucleus. Predicted to be part of RNA polymerase I complex and RNA polymerase III complex. Is expressed in eye; lens; midbrain hindbrain boundary; optic tectum; and pharyngeal arch. Used to study Treacher Collins syndrome. Human ortholog(s) of this gene implicated in Treacher Collins syndrome 2. Orthologous to human POLR1D (RNA polymerase I and III subunit D).

Ensembl:

ensembl_id ENSDARG00000037570

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00015126 True 667 mRNA 0.39 5 9077314 9085349

Neighbor

gene id symbol gene type direction distance location
XLOC_007721 sybl1 coding downstream 21247 9033315 ~ 9056067 (-)
XLOC_007720 NA coding downstream 48352 9024325 ~ 9028962 (-)
XLOC_007719 zgc:153681 coding downstream 136815 8893529 ~ 8940499 (-)
XLOC_007718 ATG2A coding downstream 186877 8819064 ~ 8890437 (-)
XLOC_007717 si:dkeyp-115e12.7 coding downstream 260381 8815868 ~ 8816933 (-)
XLOC_007723 sh2d1ab coding upstream 31877 9117226 ~ 9128919 (-)
XLOC_007724 arhgef9b coding upstream 56813 9142162 ~ 9199968 (-)
XLOC_007725 asb12b coding upstream 180392 9265741 ~ 9281232 (-)
XLOC_007726 tent5d coding upstream 258511 9343860 ~ 9355177 (-)
XLOC_007727 tbx22 coding upstream 305501 9390850 ~ 9400556 (-)
XLOC_007641 CU855896.1 misc downstream 6669474 2407736 ~ 2407840 (-)
XLOC_007640 CU855896.2 misc downstream 6669883 2407328 ~ 2407431 (-)
XLOC_007639 CU855896.3 misc downstream 6670242 2406945 ~ 2407072 (-)
XLOC_007712 NA non-coding downstream 620635 8450841 ~ 8456679 (-)
XLOC_007711 CR407701.1 non-coding downstream 693391 8383549 ~ 8383923 (-)
XLOC_007709 NA non-coding downstream 794115 8245582 ~ 8283199 (-)
XLOC_007707 NA non-coding downstream 1109835 7963276 ~ 7967479 (-)
XLOC_007730 NA non-coding upstream 483561 9568910 ~ 9570304 (-)
XLOC_007731 NA non-coding upstream 486394 9571743 ~ 9581138 (-)
XLOC_007737 NA non-coding upstream 1382888 10468237 ~ 10469588 (-)
XLOC_007739 NA non-coding upstream 1439394 10524743 ~ 10525506 (-)
XLOC_007740 NA non-coding upstream 1457867 10543216 ~ 10546734 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G166734 NA unknown CI01000032 null 2835314 ~ 2849684 (+)
mexican tetra (Astyanax mexicanus) G139952 NA non-coding NC_035912.1 CM008315.1 8793861 ~ 8794207 (+)