lhx4 (lhx4,LOC108412864,LOC107665078,LOC107755297,LOC107599001,LOC107699337,LOC107550233,LOC107758007)


Basic Information

Item Value
gene id lhx4
gene name lhx4,LOC108412864,LOC107665078,LOC107755297,LOC107599001,LOC107699337,LOC107550233,LOC107758007
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035902.1
NCBI id CM008305.1
chromosome length 52532229
location 49322278 ~ 49370251 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU80712
CTAATTTTTTGTATTGTACTGAGTGTGAATCCATTCCTCTCAGTATCTCCTGAAGGGATGTTCTGGAAAGCTGTACTGAAGCACCTAAAATAAGCCACCCGAGCCGATCCgaccaacacacaacacacagaccAGATCCGGTTTCCTGCGTCGCCTCTGAACTTTTCAGTGTTAATTGTTGTAAATTTTTGTACAGTTTCAGAAAGTGTGTGGACAGTCTTGTTTTTATGAGCACTATATTTATTGCCATGTGTTTGAAAAGAGCACTGAGTCTATTCCTTTATGCCTTCTGTGCAATGGTATGAACTGTGTACAGCCAGATCTATACGgagaaaatgtgtggtgtgtgtgtgtgtg
>XM_007236978.3
CACACACGCGCACCCGCACACCCTGCACCGCACGAGCCCTTTACCGGCTGGAGCGCGCGAGCAGGAGCGGAGCCTAAGGAGCGCGAGCCCCAGCGCCGGAGACGGAAGAGTTTTACCGGCGCGCGCGCGAGGAGCAGGACAGGGGGCGAGGATGATGATGCAGCGCGCGGGACAGAGCGCGGACACGCGGGGACAACACCagttgcCGGAGTGTGCGGGCTGCAGTCAGACGATTCTGGATAAGTTTATTCTGAAGGTTCTGGACCGGCACTGGCACGCTCAGTGTCTGAAATGCTCAGACTGCCACACTCTGCTGGCTGACCGCTGCTTCTCCCGCGCTGGGAGTGTGTACTGCAAAGAAGACTTCTTCAAGAGGTTTGGGACGAAATGTGCCTCCTGTCAACAGGGCATCCCTCCGTCGCAGGTTGTTCGGAAGGCACAGGACTTCGTGTACCACCTGCACTGCTTCTCCTGCGTGATGTGCAGCCGGCAGCTGGCCACTGGGGACGAGTTCTACCTGATGGAAGACGGGCGACTGGTCTGCAAATCTGACTACGAGACAGCCAAACAGAATGACGACTCTGAGACCGGAGCCAAACGTCCCCGCACCACCATCACCGCCAAACAGCTGGAGACCCTGAAGAGCGCCTACAAGAACTCGCCCAAACCCGCCCGGCACGTCCGCGAGCAGCTCTCCTCTGAGACCGGGCTGGACATGCGCGTCGTTCAGgtctgGTTCCAGAACAGAAGAGCGAAGGAGAAGAGGTTGAAGAAGGACGCCGGGCGGCACCGCTGGGGTCAGTTCTATAAGAGCGTGAAACGGAGTCGAGGCAGcaaagcagagaaagagagctcAGCCGAGGACGGCGGCCTGAGTGACAGCGAGCTCAGCTTCAGAGATGATCAGATCCTGTCTGACCTGGGTCACGCTAACAGTCTGTACGGCAGCGTCGGGGACGTGTCCGGCGGCGGTGTTATGAACGGGGCGTTCTCTCTGGATGGCGGTGGACCTCCGTACCACGAGCTGAGGGCTGGAAGCCCCTACGGTCTGCCCCAGTCTCCGTCATCGGTCAGCTCCCTGCCCGGCCACACGCCTCTGCTCAGCAGCCTGGGGTTCAGTATGGAGGGTCTGACGGGTGCCCAGCCTGTTGGGGGTCAGGCGCTTAGGGCTGGGGGTCCAACCTCCGACCTGTCCACGGGGAGCAGCACAGGGTACCCAGACTTCCCTACCAGCCCGGCGTCGTGGCTGGACGAGATGGACCACTCCCAGTTCTGATGTTGAGGACGGCGGAGACTTGAAGTGTGTTCTCGGAGACATCTGGGGAGGGGAAGGGACCACTGGGTAAATGCGATGGTTGTTCAGAAAGTGACAAAATTTGACCTTCTCCTCTCTAATGAACTGACCATTTCAGTTGGTGACTCCAGCGTCCagtgttcttaaaaaaattactgagCGAAGTTCCTCCTGCACTGAATGGCACACGGACAGTGCTCTGTGTTCTGtaccataatgttttttttttttgtttgtttttattagtattgATACTAGCCGGCAGTGAAACTGACCACTGACCCTGTTATTAAGGACTAcaaagcagaaataaaaaaggggCGGATCATGCATGTTTCAGAATGAGGAACGAACACCACGGCCATCAAAAAGCCTTCTGATTGGCCACGCACTTTAAAAACCCCGCCCCTACCGCACACGGCCGGCTGCAGACAAGCGAGCGAGGAGAGAAATGCACAATCCCAACTGCAGCACCTGCAGAGGACTCACCTGTCCTGTTACCTGTTACCTGTTACCTGTTACCTGTTGATGGAGGTTTTGTTCTATATGTTACTGAGTATCTTTTTTATTCGCCAGCTATAAAACGTAAAAGAAATTTCTCAACGTCAAATCgagtaagataaaaaaatatatattaatatccacaaaataaatctacaagtaatataaaacaataggtTCTTCAATTAGGGGTTCTTCACATTTGATCATCGCTTTATCATCATTTGTTCAAATACACTTTAGCCATGACATTAAAACCACCAGCATAGTACAGCCTGTGTAGACCTCATGCCACCAAAACAGCTTTGTCACACCTGCCAAGACCCTGTGCTGTCACTGTGGTACAAAGAATAATGTTACACAAGATTCAGATCCTTTAAAGGACCAAcaaggattatattttcagtataACAAAATGATAAAATCCTCATGTATTAAGGAAGCGTGCAAAGTTCTAGCACTGTCACCTCTTGTTACCTAACCCTAgccagtattttattactagAACTGCGTGGTACGTCACAGAAGTCTGTGTGGGTGTGGTCTCTGACTTCACTAATTCCAGAAATTATTGAACTCTTATGCACTCATTTGTGTAGGTTCAGTGTCCTCAGCCTGGCAAACAGAGTGAGCTTTGCATCCGGGGAGGGGAGGGCGAGGCAAACAACTCTCTCtctggtgttttgaaattgaaCTGCTATAGCCATTTCACATGCTCACTCTCATTTCCttctgattactcctttaaatcatgttttaagTTGTGAGATGGGAGGAGCATTTTGCTAGGTAGCGTACTGAACACTGCAAACCAGAAACGCaccaagacctgcctgatgttctgCCTGATATGCTTACATTTAGTTGACCTAGCATTGAGTTTACTAACTCAATATCAGGCATGTGTCagctcaagttttttttttttttttttttacctctgatTATTGTTGATTTGTGCAAGAGTGTGTCAGTGTTGccagttagcatgctggctaagaTAGGAAGGTATCTATTAAACTACAAGGAAAAATTAGTTAAAGGCCTCTAGGAACAAAATGCTGATAAGAACAAAAGTTTGTAAAGTAGAACGTCAGGACCTTAGAACACAAAGTCTGCAATTGGCTGCTGATTGGCCCTTCAAAATGCTTAATATGCTAGATGTGGTGGCAAATTACTTAGCTATGGTTAATAGCTtgcaaaccttactgaagctcagtgattacctgttcaatAGAAAAACAGCCAGCTCACCCATTTTCCATGGCTGTGGCACACTGTTTGTCAGTCCTGCGGTGGTATTCacctggttttaatgttatggctgatcggagtaaaacaaaaaagtgaaataaaaaaaaaacggtgccactttaaaataagactacctttataaagggtttataaatgctttacaattagtttattaatggttactaattaggttgtaaatgccttaaaaatcattaattatcagtcataatcattaattatcactcatacatagaaaggacaacaatatagatggctatGGGTTCactttggcaaacaacaggtcatagttacattttttgtgtatgtgttataactaattattaatgatttgtaaggcatttacaatctaattattaaccattaatacactaattgtaattaaccgtttatataccctttataaaggtagtcttattttaaagtggtaccaaaaaaaacaattaaacatgcTCCCAGATCAGGTGCTTTCCTGTTGCTTATGGTATCCAGGGTTAAAcacaagtttaaaaaatatttttagttgtttAAAATTAAGCAGAAGATCTCAGATGTTCCTAAAGATGTTCTCCAGTTTCCCCAGTtaaagattaattttttttgtgcttcagAGTCGTGGTGTTAAAGTTGTGTGGGGCGGAGATAAGTGTGTGATGGATGTTTCTTTGGTAAGGGATGTGTGTCTCAGAGGCAGCAGTGTTCAGCAGGGTGTTTGAATGGCCAGAACACTGTGGATCAtagctactgttttttttttactattgtaaATCAAACTGAATTCTTATCAACtcatacacataaaaaaatatatatttctgcactCAAAGGAAAACAGGTtctaaaattaaattgttaGTTTCATCATTGTTATTTGGGATGCCTCCATCTAATTTAATAAGGCATATTATGCTGAATCTAGTTccgatcctttgtttttactgctgtgctgctgtgttTAAGCACAGCACCCTCTAGTGTCCACTAAACCTCACTAACAGACTTATTATTTTCAGCTCATAGcattattttctggattttaaaAATGTGGCTGTTTAGAAACAAAACTACAGAAGAAGGCTCTAtaaatttattataaaacagcAGCAATTCTCAGTATTGAGAGTACTGAATCAAAATGAATTCTGGacaatacttaagtacttaGGTTAGACTGGTATCGGTTGATTCTTGAATTTAATTTATAGGTGTGTAGGAGTTTGGTTTTGGTGCCATTTGGGTCAGTATTAATCAGCAGGTTCAGATGCAGTAATTTTACAGCAGCTCCTTCATGGACAGCTTGTTCAGACAGAGAGAAGTTGAGAGCTGTGGTGTTATAGAAGCTAATTTTTTGTATTGTACTGAGTGTGAATCCATTCCTCTCAGTATCTCCTGAAGGGATGTTCTGGAAAGCTGTACTGAAGCACCTAAAATAAGCCACCCGAGCCGATCCgaccaacacacaacacacagaccAGATCCGGTTTCCTGCGTCGCCTCTGAACTTTTCAGTGTTAATTGTTGTAAATTTTTGTACAGTTTCAGAAAGTGTGTGGACAGTCTTGTTTTTATGAGCACTATATTTATTGCCATGTGTTTGAAAAGAGCACTGAGTCTATTCCTTTATGCCTTCTGTGCAATGGTATGAACTGTGTACAGCCAGATCTATACGgagaaaataaagcaaaatcatTTTTGAGTTACA

Function

symbol description
lhx4 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within ventral spinal cord interneuron specification. Predicted to be active in nucleus. Is expressed in adenohypophyseal placode; nervous system; spinal cord neural keel; and spinal cord neural tube. Human ortholog(s) of this gene implicated in panhypopituitarism. Orthologous to human LHX4 (LIM homeobox 4).

NR:

description
PREDICTED: LOW QUALITY PROTEIN: LIM/homeobox protein Lhx4-like

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K09374 LHX3_4; LIM homeobox protein 3/4

RNA

RNA id representative length rna type GC content exon number start site end site
TU80712 False 357 lncRNA 0.42 2 49345114 49370251
XM_007236978.3 True 4769 mRNA 0.45 6 49322278 49345475

Neighbor

gene id symbol gene type direction distance location
LOC103029228 NA coding upstream 13503 49272994 ~ 49308775 (+)
cep350 NA coding upstream 53406 49203268 ~ 49268872 (+)
cacna2d3 cacna2d3 coding upstream 904066 47998093 ~ 48418212 (+)
LOC103038409 LOC103038409,LOC108411948,LOC107724878,LOC107667523,LOC107689282,LOC107711839,LOC107602832,LOC107600045 coding upstream 1388667 47927955 ~ 47933611 (+)
il17rb NA coding upstream 1428323 47880396 ~ 47893955 (+)
LOC103028608 xpr1a,xpr1,LOC107755298,LOC107758009,LOC107699288,LOC107665065,LOC107603171 coding downstream 100181 49470432 ~ 49539741 (+)
sin3b sin3b,LOC106613916 coding downstream 178393 49548644 ~ 49568835 (+)
LOC103028292 def6,def6a,LOC107550223,LOC107757990,LOC107755289,LOC107700524,LOC107599059 coding downstream 200461 49570712 ~ 49600806 (+)
ndufb11 ndufb11 coding downstream 232540 49602791 ~ 49606898 (+)
LOC103028705 LOC103028705,LOC108265463,LOC108411640,LOC105890655,LOC108438067,LOC105006799,LOC103466989,LOC105026930 coding downstream 238348 49608599 ~ 49613480 (+)
G59883 NA non-coding upstream 50295 49239227 ~ 49271983 (+)
G59855 NA non-coding upstream 285233 49036613 ~ 49037045 (+)
G59853 NA non-coding upstream 286473 49032837 ~ 49035805 (+)
G59798 NA non-coding upstream 393472 48928458 ~ 48928806 (+)
G59793 apeh,LOC105013991 non-coding upstream 396844 48922590 ~ 48925434 (+)
G59970 NA non-coding downstream 82271 49452522 ~ 49453328 (+)
G59972 NA non-coding downstream 84178 49454429 ~ 49455103 (+)
G59976 NA non-coding downstream 89198 49459449 ~ 49460506 (+)
G59986 NA non-coding downstream 108834 49479085 ~ 49479357 (+)
G59996 NA non-coding downstream 133266 49503517 ~ 49503723 (+)
G59806 NA other upstream 323807 48998160 ~ 48998471 (+)
G59782 NA other upstream 442655 48870167 ~ 48879623 (+)
gnb1 gnb1,gnb1a,LOC103044197,LOC104956353,LOC107666091,LOC107595416,LOC107385217 other upstream 1660921 47623554 ~ 47661357 (+)
G59257 cdk11a,LOC108265382 other upstream 2440387 46852364 ~ 46881891 (+)
G58971 NA other upstream 3532124 45789711 ~ 45790154 (+)
G59961 NA other downstream 53265 49423516 ~ 49437613 (+)
LOC103025235 LOC103025235,LOC108413084,LOC108265140,LOC107598993,LOC107665077,LOC107755310,LOC107603028 other downstream 497367 49867618 ~ 49990417 (+)
LOC103045694 NA other downstream 1269243 50639494 ~ 50652906 (+)
G60481 LOC108440552,LOC108265824,LOC107743114,LOC107552217 other downstream 1905949 51276200 ~ 51286140 (+)
hdac6 hdac6,LOC107584872,LOC107674364,LOC107701824,LOC107552211,LOC107743106,LOC107727426 other downstream 2017319 51387570 ~ 51409262 (+)

Expression


Co-expression Network