XLOC_000398 (arl13b)


Basic Information

Item Value
gene id XLOC_000398
gene name arl13b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 33668236 ~ 33694795 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00000679
TAGCAGCCAGATTCAGCTTGGTAAACAAAGCGGATTGCTAGCGAGCTAACAGTTAACGTTACCCCAGTAGTATCTGTGCAGACAGGGGCATAAAATTAAGAGTGCGATTAGGGGATGTTTTAAAAACCGTGCGCACAGTCAGGGTTTAATTAAAGGTTTCTTTCTGCATTATGTGCAATTTTATAGTTTTAATGCATCGTATGTAATAGCTAACTGGTTAGCCCTCAGTGAGACAGCTTTGATTCGGGGGAGCAAAATGAAACTAAACTATAATGGTCCGCGTTGTAAGTGATAGTTCAATAATTAAGCGACGTGACGTTATCTTAGCTGAccagctttgttttattttgacgtTATTATCATGTaataaccaaacaaaatgaaTGTACACATCTTTACGAGTCACTCAGATAGTCAAATAATAGCGTGTTAGTAGATAACgggttgattaaacataaaaagagGAGGCGTTAAGTGCTAACGTTAGTAATCAGCTAACTTAAAACGACTGTCATGAAAAAATAAACCCCAGTGAAAGCATTTAGGGGGGAAATGTTCAATCTGATGGCGAACTGTTGCAACTGGTTGAAACGATGGAGAGAACCTGCAAGGAAGGTGACATTAGTAATGGTGGGATTGGACAATGCTGGAAAAACGGCGACAGTCAGAGGAATCCAGGGAGaaaGCCCTTTAGATGTAGCACCTACAGTGGGCTTTTCAAAGGTGGACCTGAAGCAGGGAAAGTTTGAGGTCACAATCTTTGACCTGGGTGGCGGGAAGCGTATTCGTGGCATTTGGAAAAACTACTACTCTGAATCTTATGGAGTGGTGTTTGTTGTGGACTCCAGTGATGTCCAGAGAATCCAGGAGACCAGAGACACCATGGCTGAGGTTCTCCGGCATCCTCGTATTGCAGGCAAACCTGTCTTAGTACTGGCTAATAAACAGGACCAAGATGGGGCAATGGCTGAAGCAGATATCATTGAGACCCTGTCATTGGAGAAGCTAGTCAACGAAAATAAATGCCTTTGCCAGATTGAGCCCTGTTCAGCTGTCTTGGGTTATGGTAAGAAGGTTGACAAATCCATCAAAAATGGCCTTAACTGGCTCCTAAATAACATTGCCAAGGACTATGAGGCAATTTCAGAACGTGTGCAAAAAGATACAGCCGAACAGAAGGCTCAGGAAGAACAAGACAAGAAAGAAAGAGCAGAGAGAGTTCGGCGGATCAGAGAAGAGAGGTCAGTGAGCTTACAAAACTTCAGATTGTTGCTGCTTAACGCCTGGTTTATACTCTACGCGCCAgctagttcgcttgagtgcgtgcagcgaatgtgacgtcatcacaGAGTTTGAGGAGGTTCACTTTGGGTGCGTGCGATATGATTTCGGCCAGCGAATCGCATgatttttttgagactcgagcacAGTTTGAGCGGCACCGCAACTGATTTGAATTGAGTATGAAACACtttaaagagattttgtctgaaacagtatgcctgtacagacatctttatgatccgtgatcatagagataaccagatgaccaataattattggctagaaattgcaacagtcgCGGTAAAGGAGAAAGTTTTTGTTTAAAGGTTTTGTAAAAACCCGAGGGATAAGTTTGGTAAAGCAAAAAAAAGGCCTTAGCTAAAGTGGAGAcgcaggtacacaattacagaatatgtttttccaccctTCATAGGTTTAACACTGGTGTATatgtttaattttgaatttaaaacaatttattagttacaaatataaaattaaggagcaaattatttctttgataactggaaaggaatatttaaACCTATTTGTTAACAATATACTGAcacctgtttttctaggcttttttgttgataatggtcaggaatgttggaccgttattgcctttttagcataagtatagAACAGAAACTAGCTGGACAGTAGTGTGTATATTGTGAAGCGGGCTAATTctaaaacatctgtattttttagtaagttttacttttttgcttttattcttgtaataataaaaatatatttgtagagcaacccatgttctgtagtcaataatattttaataaactttaattggTATAACTGTCCGAGATAAAAGCAAGTTATGCAtcaagtttgatttaaaaaaaaaa
>TCONS_00000680
AGATTCAGCTTGGTAAACAAAGCGGATTGCTAGCGAGCTAACAGTTAACGTTACCCCAGTAGTATCTGTGCAGACAGGGGCATAAAATTAAGAGTGCGATTAGGGGATGTTTTAAAAACCGTGCGCACAGTCAGGGTTTAATTAAAGGTTTCTTTCTGCATTATGTGCAATTTTATAGTTTTAATGCATCGTATGTAATAGCTAACTGGTTAGCCCTCAGTGAGACAGCTTTGATTCGGGGGAGCAAAATGAAACTAAACTATAATGGTCCGCGTTGTAAGTGATAGTTCAATAATTAAGCGACGTGACGTTATCTTAGCTGAccagctttgttttattttgacgtTATTATCATGTaataaccaaacaaaatgaaTGTACACATCTTTACGAGTCACTCAGATAGTCAAATAATAGCGTGTTAGTAGATAACgggttgattaaacataaaaagagGAGGCGTTAAGTGCTAACGTTAGTAATCAGCTAACTTAAAACGACTGTCATGAAAAAATAAACCCCAGTGAAAGCATTTAGGGGGGAAATGTTCAATCTGATGGCGAACTGTTGCAACTGGTTGAAACGATGGAGAGAACCTGCAAGGAAGGTGACATTAGTAATGGTGGGATTGGACAATGCTGGAAAAACGGCGACAGTCAGAGGAATCCAGGGAGaaaGCCCTTTAGATGTAGCACCTACAGTGGGCTTTTCAAAGGTGGACCTGAAGCAGGGAAAGTTTGAGGTCACAATCTTTGACCTGGGTGGCGGGAAGCGTATTCGTGGCATTTGGAAAAACTACTACTCTGAATCTTATGGAGTGGTGTTTGTTGTGGACTCCAGTGATGTCCAGAGAATCCAGGAGACCAGAGACACCATGGCTGAGGTTCTCCGGCATCCTCGTATTGCAGGCAAACCTGTCTTAGTACTGGCTAATAAACAGGACCAAGATGGGGCAATGGCTGAAGCAGATATCATTGAGACCCTGTCATTGGAGAAGCTAGTCAACGAAAATAAATGCCTTTGCCAGATTGAGCCCTGTTCAGCTGTCTTGGGTTATGGTAAGAAGGTTGACAAATCCATCAAAAATGGCCTTAACTGGCTCCTAAATAACATTGCCAAGGACTATGAGGCAATTTCAGAACGTGTGCAAAAAGATACAGCCGAACAGAAGGCTCAGGAAGAACAAGACAAGAAAGAAAGAGCAGAGAGAGTTCGGCGGATCAGAGAAGAGAGAGACCGACAGGAACGGGAGGAAGCAGAGCGAGAAGGAAGGACATTAAAAGAGGAAGAGCTAGATGATGTCAACATGTTCAACCCCTTTCAACCAATAAACAATGTTTTGACTGAGAACCAAGACAGACTAAACAGAGAAAAAGAGATGCAAAGACAGAGGGAAAATGGCCAGCAGGGCAGTGTGCAAGAACAGATAGCACTTCAagatgaggaggaagaagaggaagatGAAGAGAGTGAGAGACAGACTCCAGAAAGCACAGAATCAGGAGCAGTGGACCAGACCAAAAAGAAAACTAGGAAACTACGGTTGAAACGCAAACACAGAGTCGACCCTCTTAGGATGGAAGAAGCAGCACCCAAAAGCCCCACGCCTCCTCCTCTGCCAGttGGATGGGCAACTCCTAAAGTTTCTAGGCTCCCCAAACTTGAGCCTCTTGGAGATACAAGGCATTCTGATTTCTATGGCAAACCTCTCCCACCTGTAGCAATTCGGCAGAGGCCGAACAGCGATACTCATGATGTCATTTCCTAACACTACCTCTACTTCCCCAACCCCCCCTTCACTGGTTTACAGTTCTTAAGGTTCCCTGCCAATCAAAGTATTGTTTTGTTCTTATCTTCAAGCACGGGCAGTGTAGCAAGCTACGCAGATGTAATTGCCCATAAGAGAGGAACTGATACCCAATCTGCATTCCCAGATGGATCACAAGAACTCCAGCAACCAGTGACTGATAGTCAGCAGATGGACATGGACATTCACTTCATGACATGTTCAGAAAACATAGAATGGTTCAATATTTAGGATTTTGTTGAGCTGTTTGTTTTATCCAAATACTTTAAATCAGTATTAACAGACTTTTGAAATTAAGTATGTTTTTAATGCGTTGCAAAAATGCATTACAGACCTATTTTTTAAGATAACTGAAAAATATGTACATACAAAAAGTTTAAATTTGTGTACTTGAAATTGTTCTTCTGGTCCACATGCATACCTTATTATTCTGCGCATGTAATGTGCAATCGATTGTGACACAGTTTGCCTTTAAATGAtcagaaatgtttcttttttctctctcagcATATAGTTTCATACACTGTGCTGTCGTAATTTTGAGAATGACATTCATACTATCTAGTAGCACCAGCAACAGATACCGAGATCTTGATAAAGTGAACTTTTTGCATGAGATGTGAAACATTTTTCTACAAGCTCGTTATTGAGTTTTATTGTCACATTTGGTACATCATGCTGTATCAGGGAGGAAATGGTCATTGAACGATAATTTCATCAATTACTGATTTAAATATATTCCACTGTAGTTGTAACACGGCTCAACCTGTATTACGTATACTGTTGGACGCTGCTTTCAGATTGATTTTATgctgttacagttttttttttaattgtttcagTTTGTTGATGTTTTGTATTATACACCACACACTAATGTTTAGTTGATGAAAATTCTGATGTCATCCATTTTGCTCTGCTTTAAGTACTTGCGCCTTTTGTACTCGGTTTACATTTAATCTaactgtcaaataaataaataaaagatatttttaCTCTGC
>TCONS_00000681
GCCGAACAGAAGGCTCAGGAAGAACAAGACAAGAAAGAAAGAGCAGAGAGAGTTCGGCGGATCAGAGAAGAGAGAGACCGACAGGAACGGGAGGAAGCAGAGCGAGAAGGAAGGACATTAAAAGAGGAAGAGCTAGATGATGTCAACATGTTCAACCCCTTTCAACCAATAAACAATGTTTTGACTGAGAACCAAGACAGACTAAACAGAGAAAAAGAGATGCAAAGACAGAGGGAAAATGGCCAGCAGGGCAGTGTGCAAGAACAGATAGCACTTCAagatgaggaggaagaagaggaagatGAAGAGAGTGAGAGACAGACTCCAGAAAGCACAGAATCAGGAGCAGTGGACCAGACCAAAAAGAAAACTAGGAAACTACGGTTGAAACGCAAACACAGAGTCGACCCTCTTAGGATGGAAGAAGCAGCACCCAAAAGCCCCACGCCTCCTCCTCTGCCAGCACGGGCAGTGTAGCAAGCTACGCAGATGTAATTGCCCATAAGAGAGGAACTGATAC

Function

symbol description
arl13b Predicted to enable GTP binding activity. Acts upstream of or within cilium assembly and photoreceptor cell outer segment organization. Located in cilium. Is expressed in Kupffer's vesicle; nervous system; otic vesicle; and pronephros. Used to study Joubert syndrome 8. Human ortholog(s) of this gene implicated in Joubert syndrome 8. Orthologous to human ARL13B (ADP ribosylation factor like GTPase 13B).

GO:

id name namespace
GO:0021532 neural tube patterning biological_process
GO:1905515 non-motile cilium assembly biological_process
GO:0007224 smoothened signaling pathway biological_process
GO:0021830 interneuron migration from the subpallium to the cortex biological_process
GO:0035845 photoreceptor cell outer segment organization biological_process
GO:0007275 multicellular organism development biological_process
GO:0021943 formation of radial glial scaffolds biological_process
GO:0097500 receptor localization to non-motile cilium biological_process
GO:0060271 cilium assembly biological_process
GO:0031514 motile cilium cellular_component
GO:0042995 cell projection cellular_component
GO:0060170 ciliary membrane cellular_component
GO:0005886 plasma membrane cellular_component
GO:0097730 non-motile cilium cellular_component
GO:0005929 cilium cellular_component
GO:0016020 membrane cellular_component
GO:0005525 GTP binding molecular_function
GO:0000166 nucleotide binding molecular_function

KEGG:

id description
ko04031 GTP-binding proteins

ZFIN:

id description
ZDB-GENE-021217-3 Predicted to enable GTP binding activity. Acts upstream of or within cilium assembly and photoreceptor cell outer segment organization. Located in cilium. Is expressed in Kupffer's vesicle; nervous system; otic vesicle; and pronephros. Used to study Joubert syndrome 8. Human ortholog(s) of this gene implicated in Joubert syndrome 8. Orthologous to human ARL13B (ADP ribosylation factor like GTPase 13B).

Ensembl:

ensembl_id ENSDARG00000012763

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00000679 False 2153 mRNA 0.39 5 33668236 33684216
TCONS_00000680 False 2808 mRNA 0.41 10 33668244 33694795
TCONS_00000681 True 520 processed_transcript 0.48 5 33683231 33693904

Neighbor

gene id symbol gene type direction distance location
XLOC_000397 znf654 coding upstream 4531 33647682 ~ 33663705 (+)
XLOC_000396 htr1fb coding upstream 32932 33634186 ~ 33635304 (+)
XLOC_000395 chmp2bb coding upstream 98991 33558555 ~ 33569245 (+)
XLOC_000394 NA coding upstream 149413 33517802 ~ 33518823 (+)
XLOC_000393 dhrsx coding upstream 180861 33383644 ~ 33487375 (+)
XLOC_000399 nsun3 coding downstream 2375 33697170 ~ 33722780 (+)
XLOC_000400 CU915566.1 coding downstream 40223 33735018 ~ 33735134 (+)
XLOC_000401 CT573012.1 coding downstream 272362 33967157 ~ 33967273 (+)
XLOC_000402 epha6 coding downstream 274220 33969015 ~ 34201195 (+)
XLOC_000403 dre-mir-734 coding downstream 428085 34122880 ~ 34122972 (+)
XLOC_000390 BX322647.1 non-coding upstream 451518 33215241 ~ 33216718 (+)
XLOC_000388 CU915272.1 non-coding upstream 962009 32706109 ~ 32706227 (+)
XLOC_000386 CU462859.1 non-coding upstream 1154132 32513989 ~ 32514104 (+)
XLOC_000383 BX901898.1 non-coding upstream 1650121 32017437 ~ 32018115 (+)
XLOC_000407 CR848003.1 non-coding downstream 705445 34400240 ~ 34400354 (+)
XLOC_000408 NA non-coding downstream 755864 34450659 ~ 34454447 (+)

Expression


Co-expression Network