XLOC_000356 (zic2b)


Basic Information

Item Value
gene id XLOC_000356
gene name zic2b
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 29831759 ~ 29860895 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00000608
GGAGACCAGAGTTTTATAGCTTTTCGTAATGGGTCTGGACTATATTCTACACCTGACAAAACCTCAACCAGCTTTGAGAGAAAGATGTATCCTGCCAGAAACGAAACACAGATTCTTCTCTCGTAAACGCATAAAACTGGGCGGAGCACCAAGAGCCGTCAGCACTGATTACTCACGGAGAAAAACCGTTCCTGTGTGAATTCGAAGGCTGCGACAGACGCTTCGCCAACAGCAGTGACCGGAAGAAGCACATGCACGTTCACACGTCTGACAAGCCATATCTGTGCAAACTCTGCGACAAGTCCTACACACACCCCAGCTCCTTGAGAAAACACATGAAGGTTCACGAGGATCAGGCTCCAATAGCGGACTCCTCTCCTGCTGGAAGCTCCGGGTACGAGTCCTCCACTCCGTCCAGTCTGATCTCTCCATGCTCGGAGACGCACAGCACCTTGTCGCCTGATTCTGCCGCGCTCAACAGCAGCGGGCACAATAGCTTAACGTCCAATTTTAACGAGTGGTACGTTTAAGGACTCCGCCAAGAACTGCatatcctaaaataaaatattatttgtaaatagcaaatgaggGTTTATGTTCTCAGCATGTCGGTGTTGCACTGTGAATAAAGAAAGCCGAGAATTATTATGTGTCTAAAAATGCAGGCAGTTTTCTTCAATGAACAACATGTCC
>TCONS_00000609
TTGGATACACGACGCACAGAGAACCTGCGCAACCGCTACTAAATCCAATTTGGCTCACCAATCGTACAGATGTACACATTTCGTACGTTTTCAAAGCTTTTCCATCGCATAAAAAGGATTTATTTGATTTGACTCAGTTCATCACGTGGCATGAgttttaattaacctaattacggGCAAGTAACAGCCACTCAGTTGCTCATAGCCATATAGctactttttttctatttaaacgcGGGTGTAGTGTCTTTACGCATTCTTTGGTCAAAAATCGTGGTGATGTTACTGGACGCCGGCCACCAGATTTCTGGTTTAGGGGTTGGCACGTTCACAAGGCATCACTCGGCTGTGAGCGAGACCCAGGACAGAGATATGAGTTTTATGGAATCGGCGCACATGGGCGCGTTCAAACTGAACCACCCCGATTTGTCCCCAGGCCAGAGCGCAGCTTTTGCGCCACAAGCAAGCAGCTATTCTGCGGCCGCTCTTGGAGCGCATGCGGCGGCGCACGCTGCCTCTTTCGCCAGCTCCACTTTTAACTCCACCAGGGAGTTCCTCTTGCGCAGCCGAGGATTTGGGGATTCGACTCCGGCCAGTGGACAACACCCCATCTTCAGCTCCACATCAGGGTCTCTCCATCACTCTCACCCAGAAGGTCAGGGTCACCTACTTTTCCCCGGAATCCACGAGCAGCACGGGTCCCATCACGGCTCTCCAAACATCCTGAATGGACGCCTTGGATTACCCGGTGAGGTTTTCGGGCGGACGGAGCAGTATCACCAGGTGCCCAATACGCGGGCCGATCCATACAGCCAATATGGCCTAAACATGAGTATGAACATGGCGCACCATCCAGGCGCGTTCTTCCGCTACATGCGACAACAGTGCATCAAACAAGAGCTTATTTGTAAGTGGATCGACCCCGAGCAGCTCGGTGACCCCAAAAAATGCTGCAGCAAAACTTTCAGCACCATGCACGAACTGGTCACGCATGTGTCCACTGAGCACGTTGGCGGGCCAGAACAGTGTAACCACATCTGCTTTTGGGAAGAATGTCCACGGGAGAGCAAACCATTCAAAGCAAAGTACAAATTAGTGAATCATATCCGAGTGCACACGGGAGAGAAACCCTTCGCGTGCCCATTCCCGGGATGTGGCAAGGTGTTCGCGCGTTCGGAGAATTTGAAAATACACAAACGGACACACACTGGAGAAAAACCGTTCCTGTGTGAATTCGAAGGCTGCGACAGACGCTTCGCCAACAGCAGTGACCGGAAGAAGCACATGCACGTTCACACGTCTGACAAGCCATATCTGTGCAAACTCTGCGACAAGTCCTACACACACCCCAGCTCCTTGAGAAAACACATGAAGGTTCACGAGGATCAGGCTCCAATAGCGGACTCCTCTCCTGCTGGAAGCTCCGGGTACGAGTCCTCCACTCCGTCCAGTCTGATCTCTCCATGCTCGGAGACGCACAGCACCTTGTCGCCTGATTCTGCCGCGCTCAACAGCAGCGGGCACAATAGCTTAACGTCCAATTTTAACGAGTGGTACGTTTAAGGACTCCGCCAAGAACTGCatatcctaaaataaaatattatttgtaaatagcaaatgaggGTTTATGTTCTCAGCATGTCGGTGTTGCACTGTGAATAAAGAAAGCCGAGAATTATTATGTGTCTAAAAATGCAGGCAGTTTTCTTCAATGAACAACATGTCCTTTGGTAGCTAATGCGTTGCCAAAGACAAAGAGtggatgtatttttaattttggtctgtattaattgttttacagtaaCGTCGGGTCAAGTTACGATGTTTGAATAGCCTACAATGTATCTGTCATAGATTAAAGCTATTTGACGTTTCATGATTGTCTTACCATGAAAGTATTTTCGGGGATCCTTAAGTGCCCAAGTCAAATGTTGTACAGTGAAAATGGACACAATTTCgtgaatgtattttattgtacGAATAATTATTTGTTACTCATGTAGAAATCATCCACTTCGAGTTAGAGTATTTAGAAATGTCTCGTTTTTAAATTATGGTATAGCTTATACttgataaaatacaaaatatttatggAAAAACTCGACGAAAATGTGTACAGAATTGTTACATTTAAAGTGTTTGTACATTGTTATTCAGTTTAATGATGTAAATTCTTGTGATAACAAATGCCAAACATTAAAATGAAGGAAAATATTATATAAAggcaataaaatgaaacaaatctaAA

Function

symbol description
zic2b Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within animal organ development and regulation of retinoic acid receptor signaling pathway. Predicted to be active in nucleus. Is expressed in several structures, including germ ring; immature eye; nervous system; neural keel; and neural plate. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 5. Orthologous to human ZIC2 (Zic family member 2).

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0014032 neural crest cell development biological_process
GO:0007417 central nervous system development biological_process
GO:0048385 regulation of retinoic acid receptor signaling pathway biological_process
GO:0030902 hindbrain development biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030219-92 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within animal organ development and regulation of retinoic acid receptor signaling pathway. Predicted to be active in nucleus. Is expressed in several structures, including germ ring; immature eye; nervous system; neural keel; and neural plate. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 5. Orthologous to human ZIC2 (Zic family member 2).

Ensembl:

ensembl_id ENSDARG00000037178

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00000608 False 693 processed_transcript 0.47 4 29831759 29860373
TCONS_00000609 True 2248 mRNA 0.46 3 29858032 29860895

Neighbor

gene id symbol gene type direction distance location
XLOC_000355 tm9sf2 coding upstream 7384 29798140 ~ 29824375 (+)
XLOC_000354 zc3h13 coding upstream 33852 29766725 ~ 29797907 (+)
XLOC_000353 cpb2 coding upstream 67699 29759678 ~ 29764060 (+)
XLOC_000352 raph1b coding upstream 88119 29664336 ~ 29743640 (+)
XLOC_000351 si:dkey-228l14.1 coding upstream 312757 29515160 ~ 29519002 (+)
XLOC_000357 pcca coding downstream 1179 29862074 ~ 29953746 (+)
XLOC_000358 NA coding downstream 213740 30074635 ~ 30079529 (+)
XLOC_000359 vps8 coding downstream 222683 30083578 ~ 30310689 (+)
XLOC_000360 dre-mir-740 coding downstream 305058 30165953 ~ 30166065 (+)
XLOC_000361 BX255890.2 coding downstream 366496 30227391 ~ 30227505 (+)
XLOC_000350 CR774189.1 non-coding upstream 323286 29507647 ~ 29508473 (+)
XLOC_000349 NA non-coding upstream 330725 29500308 ~ 29501034 (+)
XLOC_000348 CT573186.2 non-coding upstream 379026 29451465 ~ 29452733 (+)
XLOC_000347 CT573186.1 non-coding upstream 386040 29444452 ~ 29445719 (+)
XLOC_000346 BX908780.2 non-coding upstream 519200 29311527 ~ 29312559 (+)
XLOC_000365 BX548015.2 non-coding downstream 993074 30853969 ~ 30859524 (+)
XLOC_000369 NA non-coding downstream 1280224 31141119 ~ 31144527 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000049_00922883_00924745 NA coding CI01000049 null 922423 ~ 924902 (+)