XLOC_006187 (nkx1.2la)


Basic Information

Item Value
gene id XLOC_006187
gene name nkx1.2la
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007124.7
NCBI id CM002897.2
chromosome length 52186027
location 40770628 ~ 40775530 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00012179
GACATCTGACCGAGCAGACTCCGATCCAAAGACACGCTGTTTCCAGCTCCTGCATCTGCTCTGCTTATAGAAATAGAACATACAAATCAGACTGACCTGCAAGCGAAAGATGCTCGAATATCAGGAGTCCGGAGGGAAAGGTACATCGGACCATCGGATTTCCTTTTCGATTATTGACATATTGGATCCTACAAAGTTCACAAGTAAAAAGACAGACGTGTCGGAGAAAGAACGGACCTCATCTTCAGAAAACACGGGATTTGGAAGTTTGGAGGAATCGCGCAATGGGAAACACAGTGATGGAGAATGCGAAAGTACAGGAGATCGATCTGATGACCGTCACGGCTGCGTCAGACTGCATCCTCCTGATCCAGATGTTGACTTTGACTGCTCATCCTCGCACAGAAGCTTGAAATCGGGCTTTTCTCCTTGTGAAGATCCGGATGAAGCAGCTGAAGAGAGGATGACTCCAGCGCCGGATGATGTGTCGCGTCAGCGGCGGCGCCGGTCAGATCACAGCTGTGCAAAACCGCGGCGCGCCAGGACCGCCTTCACCTATGAACAGCTGGTGGCTCTGGAAAACAAGTTCCGCGCCACGCGTTATTTATCCGTTTGCGAGCGACTGAATCTCGCACTGTCTCTGAGCCTAACCGAAACCCAAGTCAAGATTTGGTTCCAGAACCGAAGAACCAAGTGGAAAAAGCAGAACCCAGGTGTTGAGAGTTCCTTACAAGCTGGCACAAACTCTCTACCCAACATCAGCCCCTCCTGCGGCTCCGCGTCTGCGCTCCACCCCCCGTTTAGCACCGGAAACATGATCTTTCATTCTGGCCCGGTGCATCTGGCATCTTCTGCTGGACTCTTGCATCCGTTTTTGACCGATGGCTTTCTGCAGCCCGCATTCTTCCCACCACACTTATGAACTCTGCATGGTGGAGGAATGATAATAgactgtgtgtaaatgtgaacTTATGAACATGTGTTGAGTGATCCTCAGTGGAATGGGACTGGTCTTTcatcaagggatagttcactcaaaaaatgaacatttcacaTATCATTCTGAGTGAGTTCTgagtttcttatgttgaacacagaaacaagatattctgaagaatgttggggaaaaagcAACCATTGACATCTGTAGTAGGAACAGAAATACTAGTTTTAATATGCATTATTTGaaaagcactgtaaaacccaaaatgttatggtaacttaaaccatttggggAACTaggttgcaacaaaccatttaagctcaaaaacgaatcctaatgagtactgtgaactcaatctatttgagtaaatgagGCAAATATAGCACAGTAAACGCAAAGAaataagagaactcaaaccaattgagtactgtaaaaaccaaatagttaaggcaacttaagcatttgaggaaaccaataaaaaccatttgaattaaaaaaacgaatctatatgaATATTGTTAACTTACTCCATTCAAGTAGAAGTAATGCGGTATTTGATTAACTAAttttacctttaacactgagttcaagactcttttcaaatgagtggaattaactttcagtcaactttgagttaactacactcatttcatttgataaagttgactgttgggttttactaAAAATACCAAAACATTCTTTAGGAGCCTGTATCTTccctttgtgttaaacagaagaaacgTCTCAAACGGTTTGGAACAAGTGCAgtcaaaacaattatatttgctGTTTCTACAAACCTATttaaaatgacttatttaaaataaaacaacataattattgagttgttgttgttgtttcgaGAGGGGGTAACTTGTTTTATCCTTAATcgacttgaatttgtaaaaactaataagtgaaCTTAATTACTTCTTGTTCTTCCATCACAAATTAATTGTGTGTAACCCATGCAGCATTTCTTAACATTGTGGAGTgggtgagtaaaagatgacacAGTTTAAATTTTTGGCTAAACTAgccctttaatatatatatatattaagtttaCAATATGTTCAGGAGGTGCCTGATCATTCAGATATGTCTGTCATTAGCATGTGGCAGCCAGTGCACCgtcctatttattttttatttttcaaacatcTCGCCACCTCCCCTTGTCCTCcttctgtttgtcttttttttttttttacatagtggTGTTTAAACTTATAAAGCTCAATTCAAACCTTGTTGGCGGACCGCAATCCAGGTTTTTTACCATTATCTATCATAATTGAATAAGTAGGCAAACTCctgaaatatatttttctaaCAGCTTAAAAAAAGGGACTGTTCAGCCAAAAACTTTGGTGACCCTCACTTATTTCAAACCTTTgactttcctctgttaaacacaaaataagatattttaacgAAAGCTGGAagcctgttaccattgactttcattgtatttgttttttattactatGTAAATTAatcaggtttccagctttctttatttgtgttcaattgaacaaaaagttttttttaaagcctgggaaccattttgtgagtgagtgaACTGTGTAAGCAGATATGGTTGAGAGGGTAAACCACGGACTAAAATCAAGTTTGAGTTGCTAATAATAGGCTTATGAAAAGGCATAAAAGCCAAACATCTTGCCAAATGTGTAATGAGAATGCTTTATAAATCTGTTGACaaaaaagaaacttttaaaatcTGAAGTTTTCCTGCAGAATTCTGCCAAATTAAAAATGTTGGGgaataactttttaaataaaatatattataaatataatattaaatatattaaatcatgatgatgataacaacaactaaaataataataatacactcggaaaatgctgagttgttttaaaatattctatGTTCGAATAGACAAACCTGTTTGGTTAAAAACTGTTTATATGtccatatttaaattaaaacaacccagtagtttttaaagtgtaatatttttttctgccattttttaaatgaaacaacGCATATACAGCTTCATGGTTGAAAAAGATATTGGTGGCTAGCAAGTTTTCTCAAGTTTGGTTTATGTGGCAAAGTGTTGCCAAAAATGCCCTGAATATAACTCTATGCCTCAAGAACGATTAATATGAAAAATCTGCTCAACATCAAGCAAATCTTAGAGCCGGattgtatttgtgtgtattatttttcttttttatatattgtccATGTCAGCAGTTTGATATGTAACTGTGAATTCaaagcatttcatttttaaagaacATGTAATTGAAGACtttgttcattaaaatatttagaaacattttaatgAGATCATCAGTGACAATAAAATCATACtgaaatta

Function

symbol description
nkx1.2la Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cell differentiation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including axis; nervous system; neural tube; periderm; and tail bud. Orthologous to human NKX1-2 (NK1 homeobox 2).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA 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-040615-1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cell differentiation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including axis; nervous system; neural tube; periderm; and tail bud. Orthologous to human NKX1-2 (NK1 homeobox 2).

Ensembl:

ensembl_id ENSDARG00000006350

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00012179 True 3319 mRNA 0.37 2 40770628 40775530

Neighbor

gene id symbol gene type direction distance location
XLOC_006185 ankrd2 coding upstream 29623 40729618 ~ 40741005 (+)
XLOC_006184 hps1 coding upstream 53926 40686133 ~ 40716702 (+)
XLOC_006183 hpse2 coding upstream 102551 40501455 ~ 40668077 (+)
XLOC_006182 got1 coding upstream 313633 40437550 ~ 40456995 (+)
XLOC_006181 NA coding upstream 351324 40360160 ~ 40419304 (+)
XLOC_006188 prkg1a coding downstream 39482 40815012 ~ 40955599 (+)
XLOC_006189 NA coding downstream 212885 40988415 ~ 40989361 (+)
XLOC_006190 dkk1a coding downstream 246972 41022502 ~ 41026398 (+)
XLOC_006191 NA coding downstream 1021437 41796967 ~ 41799750 (+)
XLOC_006192 CABZ01066611.1 coding downstream 1044287 41819817 ~ 41822485 (+)
XLOC_006179 NA non-coding upstream 440254 40327560 ~ 40330374 (+)
XLOC_006177 BX005216.1 non-coding upstream 801163 39969349 ~ 39969465 (+)
XLOC_006176 NA non-coding upstream 897000 39845264 ~ 39873628 (+)
XLOC_006175 NA non-coding upstream 1043164 39684471 ~ 39727464 (+)
XLOC_006193 NA non-coding downstream 1046101 41821631 ~ 41854384 (+)
XLOC_006194 NA non-coding downstream 1083474 41859004 ~ 41863031 (+)
XLOC_006197 CABZ01080781.1 non-coding downstream 1266696 42042226 ~ 42042342 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000012_02357517_02361973 NKX1-2, NKX1.2LA coding CI01000012 null 2357124 ~ 2361973 (-)