Fish Transcriptome and Expression Database

LOC110502416 (vax1)

Basic Information

Item	Value
gene id	LOC110502416
gene name	vax1
gene type	coding
species	rainbow trout (Oncorhynchus mykiss)
category of species	economic fish

Chromosome Information

Item	Value
chromosome id	NC_048587.1
NCBI id	CM023241.2
chromosome length	62880378
location	19944035 ~ 19955946 (-)
genome version	USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_021580442.2
CAGCAGACTGCTTCTTATATGAATGGTGGGGACACTACATTAATGACTAGGACCTGTGGGCAGCTCTTCCTGCTGTTGTTCGTCGTGCTGAGTGACGTGGGACGACACAGGAAACTTTAACACAGTTCCTGTTAAGCAGAGCCAGGTGGTTTTTGTGAATCAGCTTTCGTGGAGAGTACAAATTCCTATCGGGGTGGATTCACTTTATTCTGTATCCTCTGTCTCTCCGCCTCTGCTTTATTCTCTCTATCTcggtctccctccctcgctctctctctatccttctcttacTCCCACTCGCCTGTGAAAGTACTATATCGGCAAGAGCTCTATGTTGCAGAGGGACGATCATTGGCAAAAGACACAATAAATGCGATTAAAGTTAGCCATCGTGGCCAGACAACCAACTCCGGAGAAACGTTGAAAATGGCGGGCCATGTTCCGGGGATCAAAGAATGAAGTGCCTGGGAACTTTTCTGGAAGTGTTGTACCCctgtgattgtgtctgtgtgctcaGGGAGGCTATTTTGCAAAGCGAGACCAATCATTTCTCTTGATTCCCTGACTGAGAGCTGGCTGACAGATGAGGACAGAGTGAGCGAACCCCTCTATTAGGACCTGATATATTTCCCAAACAATTTAGTGTATTCATGAGGCAATGCAAATGTGGAAGCAGCAAAATGACCGTAATCAATTGAAACAGCGAGCGTGTCGATCCATCGCTCTGATTATTTGGAGATCATCTATCAGCCTGATGTGTATGTAACAAGGCGAGGTGGCATTAAATCGCTTTTAAGTTTCAGTGATAAGTCCATGATCATTGGGCAAGTGAGTTGGACAATGAAAATAGGGCACCTTGGCAGGTGAGGTAAGCGCTCCCCGAGCATTAGGTAGGTGACTCTCTGGTCTAAAAGGTGCTGTGTTAAAACAAAGCCACAGTGTTGAGACAACACAACGCGCAATACTCTCTGCAATCCCTTTTTTCATCTGACAAAGGAAAGAAAGTGGGGGAGGAAAGAAATATCGGAGAGGATAAGTGATTATGGAGGTCAGATACAACCAGGAGACAGAACCGGGGATGGGGCTGAAGAACGGACTAAAGGATGGGAAAGACAGCAAGGATTCCCAGGGAAACCTTTCCAAAACCTTCCTAAAGAATCAGCAGGAGTCCTTCTCACCATCTGGGATGGCGGAAAACTGTGAGAAGAACCGAGCTAGCACGGGGGACCCAGACTACTGCCGTAGAATACTCGTCAGAGATGCCAAAGGGTCTATACGAGAAATCATTCTGCCAAAGGGACTGGATTTGGACCGTCCCAAACGAACCCGGACCTCTTTCACTGCAGAGCAACTCTATCGTCTGGAGATGGAGTTCCAGAGGTGCCAGTATGTGGTTGGGAGGGAACGAACAGAGCTGGCCCGCCAGCTAAATCTATCTGAAACTCAGGTTAAAGTTTGGTTCCAGAACCGACGCACAAAGCAGAAGAAGGACCAGGGCAAAGATTCAGAGCTGCGCTCGGTGGTGTCGGAGACGGCAGCCACCTGCAGTGTATTAAGACTCCTAGAGCAGGGCCGGCTCCTCACGCCGCCAGGTCTGCCGGGGCTCCTGCAGCACTGTGGCAACGGCACCTTGAGTGTCGCCCTGCGAGGGCCCTCCATGGGCATGGCCAGCAatggaagcagcagcagcagcagtggtgccAGCtcagggacggccgggggcagtCCCCCTCTGCCCATAGTGACCAGTTCAGGGACGGTAGCGGGCCTTCAGAGCTCCCCGTCAGCTCATGGCCTGTTCAGCTTCCCCATGCCCTCTCTGCTGGGAAGCGTGGCCACCCGCATGTCCTCCAACCCGCTTTCTATGGCCGGGAACCTACAGGAACTGTCTGCCCGCTATCTGAGCTCTTCTGCTTTTGAACCTTACTCACGGACAAATGGCAAGGAGAGTATGGACAAAAACGTTTTCGAATGATGTTTTTGATTCGTTTCATTGCTCTCCTTGCTTTTTATCACCTTGGTTTTGTTTGTTTCGCCCTCTTCTGTCCTGtttgtgttgtggttgtcgttcatgtgaatccaattgagcatctgATGCCTCTCGGAGGGAGGAAAACAAAGACATACATTTCATTCTTACAAGAACAGGGTGATTGTTTTTAAGCTTTTGCACTAAATTAAAGTTTCAACTCCATGTTGTGAATTTCAATACAAGTACTCAGAGAAACAAATATCCATGAGATTGCATAGGGGCAGCATTGCATTTTTTTTGCAACATTTTCTCACATTTATTTTGCCGCAATAGCAATCACAAAAAGAGCAACAAAAATGAGTCTGTTTATGTTTTGGTAACACATCACACATGTTTAGCTGCTGCAGGTAATTGGCACATTACACACAAAGCTTTTCAGTGATTGGCCATGGGTGTAACATGATGGTACCTTTTTGATTTTGTGTTTTATTATTTGATTGTTTTGGTTAGACAGTGTTTCGAAGTAGAGAGTTATCAAGCATTACAGCTTGCGGAGTTCAGGTGACAGACTGTCAGTTCAGGATGGCATGGTGAACTTGGAGTTCGGCCCTTGTCAAACATGACATTTCAGTTTACGGAAATATCACAGGTCTCTTTTTCTATTTGCAGATACTCATGAGGAACACAGGCATTTAACATACAAATGCATTTACATATGCAGATGTTTTGCAATATGAAACTACAATAACAGTATTTTATACCagtttgtatttgtttttatgtTTGGGCCAAAACAAACTAAAGAAAAATGTTGTCATACAGTATGATAGTTCAATTGTTCTGTGCTAGTTGTTTTATAAATGGGTTTGTGAGGGTTTTCCCAATATGATTTTAAACACAGTCTACATTTGTAACTTTTATGTCTTAAAGCTGCAGTATTCCACTTTTTCGTCTGTGATTTTAAGAATACTGGAGTGGTAGTCCAGATTTCCATGTAAGAGTTGGAGAAAAGCTTGGACGTGTGGGGTTGGGCAAAGGGAGGACGGAGGAAAGGGTTCTGGAAAAGCTTTTGAACTACAGTAAGCAGCTTGCATAGTTGGATATAGAGAATTGAACTTGATGCTACACGATTGAAAACAGTGCAGAAGGTTTTGCAATCTTTTAAGACCTTTTCCCGTGTGAAATGTTTTAAGATCAGTCACCATGGCGGGAGGTTTAGTAGGAAAGGAGCATGAGGTGAGTGAAATTACTGTAGTACAAAAGAAAGACAAATGAGAATTGTACCtaaaattgttattttattgtaaaTTATTAATGTCCGTAATTAATAGATGATTAGTATGTATATCTGAaaaataatgaatgaatgaatgaatgaatgaatgtaaGGGAGGAGGTGATAAATCAATCAAAGCTCTttggtgctgttgttgtgaaatAACTTGAACTTCGTGACATGTGTGGTAAGAGTGTGgatacatattatatacagtatatatgcctACCAAAAAAGCCacgtgtgtttttttgtttgttcatACATTCATCATGATGATAATCCAGTTATGATTAAAAAAAAGGCCATGTTGTACCTTCATTGACAATGGGTTCGAATAGCagtttacttaaaaaaaaaaaaatattcaaatgaAGTGTTATGCCCTATGGAGAGGACCTTTGTCTGTATTATTCTAGGTagcaactgaaaggttgcaagatcgaatccccgagctgacaaggtcaaaaatctgtcgttctgcccctgaacaaggcagttaacccactgttcctaggccgtcattgaaaataagaatttgttcttaactgacttgcccagttaaataaaagtacaaaaaaatttaaaaaataataaccaGGGTCGTGTTAAATAGTAGCATGCGTGTTTGAGGGGAGTGTTTTTGTTTGCTatcttactctaaccctaacagaaaccctaaccataacctctagCTCATGGGAAAATGTACACACATTCAAAAATGTGATTGAGGCAGCGAAGGAGGCTAGGGAAGTGATATTGAAAATATGGTTTGACTCAACTCTGTAAAGTTTCGGTACTAGATGGGCTTCGTTGAAAAATGACAATTGTTAATTAAGAGAGCTACTGTATAGAACTGTCAAAATGGACACTGGAAAAACTTTGTCCGGAAGCCAAGCTATGCAGCGAAAATGACATTTGCAATGTCTGTACATAAGAACCCTTGGAGGCCTTTTCAATAGTAGTGTTTTCTATGGAATAGGAAAAAATCCCACTCTGGCCTATGAAAAGAATTGAGCTAAACCAttcaaagcaacaaaaaaaatgtcacaCAAGGAGGGGAATTGTCTCTTGAAAAAGCAGTTGCAGTGGTCAAAACCATGGAAGTCTGGGCACAAAAAAAATGGGGATGAATGTGATGATCGCAACAATAAAGGTCATAAAGGGTGTCCAAACAAATAAGCACACAGCCCACCATGTGGATTAATGGCATAATGCTCCTGGAATGGCTACCACTCTACCCTACTATATGTAGTGTACGACTGTGTGTCGTACAGCTTAATGTTTGAGTCAATGGAAATAACATAAAAATATGATTGTATTAGAAATTCAATATAAGAAATGTATTAGTGTTAGCCAAGTTCATTAAGTTGCACTTGTATCAAACTGGTGTCAAACTGTCATATATTCAAAAATTCTATGGGCCTCTTTTGTCAAATCAACAATTTAAATATGGACCAGTACAAAGAGCATGGATACAAATGACATGGAATTTCTACCAGTGATTCATAAATGAAGAAGAAATAATCCAATATGGCGGAAGTTCTGGTTCCACTTTGGACATTTACAcggaacaaaaatgtaaacgcaacatg

Function

symbol	description
vax1	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 several processes, including camera-type eye morphogenesis; negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator; and regulation of retinal ganglion cell axon guidance. Predicted to be active in nucleus. Is expressed in several structures, including anterior neural rod; eye; forebrain; forebrain neural keel; and optic vesicle. Human ortholog(s) of this gene implicated in syndromic microphthalmia 11. Orthologous to human VAX1 (ventral anterior homeobox 1).

symbol

description

vax1

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 several processes, including camera-type eye morphogenesis; negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator; and regulation of retinal ganglion cell axon guidance. Predicted to be active in nucleus. Is expressed in several structures, including anterior neural rod; eye; forebrain; forebrain neural keel; and optic vesicle. Human ortholog(s) of this gene implicated in syndromic microphthalmia 11. Orthologous to human VAX1 (ventral anterior homeobox 1).

NR:

description
ventral anterior homeobox 1-like

GO: NA

KEGG:

id	description
K09318	VAX; homeobox protein ventral anterior

RNA

RNA id	representative	length	rna type	GC content	exon number	start site	end site
XM_021580442.2	True	4846	mRNA	0.42	3	19944035	19955946

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Neighbor

gene id	symbol	gene type	direction	distance	location
LOC100136607	LOC100136607	coding	downstream	16168	19891713 ~ 19927867 (-)
LOC110503056	NA	coding	downstream	62884	19879021 ~ 19881151 (-)
hspa12a	LOC106606490	coding	downstream	218659	19678988 ~ 19725376 (-)
LOC110502410	LOC106606442	coding	downstream	312986	19505830 ~ 19631049 (-)
LOC110502408	LOC106606370	coding	downstream	558570	19261070 ~ 19385465 (-)
LOC110502421	pdzd8	coding	upstream	113251	20069197 ~ 20136003 (-)
LOC110502422	LOC106606541	coding	upstream	200457	20156403 ~ 20169212 (-)
LOC110502426	NA	coding	upstream	346347	20302293 ~ 20306390 (-)
LOC110502434	LOC106606739	coding	upstream	809235	20765181 ~ 20774451 (-)
LOC110502435	LOC106606749	coding	upstream	824834	20780780 ~ 20795640 (-)
G1839974	NA	non-coding	downstream	83782	19860017 ~ 19860253 (-)
G1839962	NA	non-coding	downstream	98691	19844927 ~ 19845344 (-)
G1839917	NA	non-coding	downstream	129770	19776227 ~ 19814265 (-)
G1839919	NA	non-coding	downstream	162000	19778916 ~ 19782035 (-)
G1839892	NA	non-coding	downstream	198358	19745441 ~ 19745677 (-)
G1840096	NA	non-coding	upstream	105350	20061296 ~ 20062015 (-)
G1840167	NA	non-coding	upstream	109608	20065554 ~ 20067364 (-)
G1840170	NA	non-coding	upstream	111581	20067527 ~ 20067952 (-)
G1840169	NA	non-coding	upstream	112071	20068017 ~ 20068926 (-)
si:dkey-51a16.9	LOC106576688	other	downstream	822692	19111958 ~ 19145332 (-)
LOC110502394	LOC106606249	other	downstream	1089863	18849389 ~ 18854222 (-)
LOC110502361	LOC106605890	other	downstream	2213523	17725263 ~ 17781515 (-)
G1837980	NA	other	downstream	2224831	17709772 ~ 17719204 (-)
G1841694	NA	other	upstream	987361	20943307 ~ 20943615 (-)
G1841959	NA	other	upstream	1389568	21345514 ~ 21371799 (-)
G1843946	NA	other	upstream	3227041	23182987 ~ 23233423 (-)
LOC110502461	LOC106607165	other	upstream	3259539	23213905 ~ 23218749 (-)
LOC110502462	LOC106607169	other	upstream	3389145	23344353 ~ 23358461 (-)

gene	XLOC_000007 f7
RNA	TCONS_00000019
bioproject	PRJEB12982

economic fish

Basic

Function

RNA

Neighbor

Expression

WGCNA

LOC110502416 (vax1)

Basic Information

Chromosome Information

Sequence

Function

NR:

GO: NA

KEGG:

RNA

Neighbor

Expression

Co-expression Network

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