LOC103025442 (lhx1a,LOC108427001,LOC108277614,LOC107743643,LOC105897175,LOC107669762,LOC107589700)


Basic Information

Item Value
gene id LOC103025442
gene name lhx1a,LOC108427001,LOC108277614,LOC107743643,LOC105897175,LOC107669762,LOC107589700
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035897.1
NCBI id CM008300.1
chromosome length 26953843
location 10654858 ~ 10684465 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU3680
GGAGCCGCGCGGAGCTGAGGAACATAGCAGGGAGCagcggaggagagagagggacagtgaGAGAAGTTTATGAGGCGTTTCGGCACTAAGTGTGCGGGCTGTGCTCAGGGCATCTCCCCCAACGACCTGGTGAGGAGGGCGCGGAGCAAAGTGTTTCACCTCAACTGCTTCACCTGCATGATGTGCAACAAGCAGCTGTCCACGGGGGAGGAGCTCTACATCATCGATGAGAACAAGTTCGTATGCAAAGACGATTATTTAAGCAACTCCAACGGGAAGGACACCAACCTGCTCTCGGTAACAGCCTGCAGTGACCCCAGTTTGTCGCCGGACTCGCAGGACCCTCTGCAGGACGATGTGAAGGACTCGGAAATCGCCGCTCTGTCGGATAAAGAGGCTCCCAGTAACGAGGCTGATGATCAGAACCTGGGCGGGAAGCGGCGCGGGCCGCGGACCACCATCAAGGCCAAGCAGCTAGAAACGCTCAAAGCAGCGTTTGCGGCCACGCCCAAACCCACGCGCCACATCCGGGAACAGCTGGCGCAGGAGACCGGCCTCAACATGAGAGTCATTCAGGT
>XM_022683024.1
GCGGACGGCGGCGGTGTTCGGTCCGGTCAGGTCTGCGCGCGCGGGGATGAAGCTAGCCCCGGATTGGTCTCGGTTTGCTGTGACGTCACGTGCCCGTGAATAAGGGCGGCTCGCGCGCATAGGGCGCAGCGCAGATCAGATCAGCTCGACAGGGCCGCGCGAGAGCCAacgtgaaagagagagtgagtgacagagagagagagaggttgagggGAAGACGGTACACGCGCCTGTTTGCACAGCgagaaaaacaacaagaagtcgatgcaaaatacaatataacacGCGCACCTTGGGACGGAGAGGCACGTGCGCTTGCAAAAGTGGgactttatgttttttggggGATTTCTGGCTGCTCTGACTGGATCCATGGACGCGTACACGAGCTTGTGCGTCTCCTCGCGCGttactgctgctgttgctgtcgTCCGAGACCGGTTGCATTAGACGCGCCTTCGaaaccttcatcatcatcatcacaattACCACCGTCAGCATCCTCCTCTTTCCTCCAGCTCTTTCACGCCTACGGTGACGGCCATGCTGCTTGTCGCGTAGCGTAGCGCGCGCCTCCTCTGTGGTGTAACGTCGCCCACGTGCTGtgggcttttatttatttacgtgcacgcgagagagagagagggagccaAAGAGGGGGAGAGAACAGACGGACATGACGGAAGCTTTCACGCGCTTTGGCAACTACCTCACGCACGCGAGAAGCTCTGGCCTGCTTCCTCTGGAGCTTTTCCTTCTCCTGACCCGTGCATCTTGACCACATCTGCCCACATCTGGCTGATTGAGTGCAGTGCCCCACACAGCTGTTTGCAGAGACTTGTGCAGTGGAGTGCGTGCAATTGGGGGAGGCTTGGAGTAAGGGGCAGTTGTCTCTTTGCACGTGTGTGTGAAGGTTTTCTCGCGCTGTGGAGGAGAACCAGAAAACAACAGCGGTACCACCAAACCAACCACATCAAGCGAACCCCACTAAGCTCGAGCTATAGCAGCGGTGGGAGCGCATCCGGAGACGATGGTCCACTGCGCGGGCTGCGAGAGGCCGATTCTGGACAGGTTCCTGCTGAATGTGCTGGACAGAGCGTGGCACATCAAGTGCGTGCAGTGCTGCGAGTGTAAATGTAACCTAACGGAGAAATGCTTCTCAAGGGAGGGGAAGCTCTACTGCAAAAATGACTTCTTTAGGCGTTTCGGCACTAAGTGTGCGGGCTGTGCTCAGGGCATCTCCCCCAACGACCTGGTGAGGAGGGCGCGGAGCAAAGTGTTTCACCTCAACTGCTTCACCTGCATGATGTGCAACAAGCAGCTGTCCACGGGGGAGGAGCTCTACATCATCGATGAGAACAAGTTCGTATGCAAAGACGATTATTTAAGCAACTCCAACGGGAAGGACACCAACCTGCTCTCGGTAACAGCCTGCAGTGACCCCAGTTTGTCGCCGGACTCGCAGGACCCTCTGCAGGACGATGTGAAGGACTCGGAAATCGCCGCTCTGTCGGATAAAGAGGCTCCCAGTAACGAGGCTGATGATCAGAACCTGGGCGGGAAGCGGCGCGGGCCGCGGACCACCATCAAGGCCAAGCAGCTAGAAACGCTCAAAGCAGCGTTTGCGGCCACGCCCAAACCCACGCGCCACATCCGGGAACAGCTGGCGCAGGAGACCGGCCTCAACATGAGAGTCATTCAGGTGTGGTTCCAAAACCGGCGCTCCAAAGAGAGGCGTATGAAGCAGTTAAGCGCGCTGGGCGCGCGGAGACACGCGTTTTTCCGCAGCCCGAGGCGGATGCGCACGCTGGTGGACCGGCTGGAGCCCGGAGAGCTTCTTCCCAACGGTCCTTTCTCCTATTACGGAGATTATCAGAGTGAGTACTATGGACCTGGAGGGAACTATGACTTCTTTCCTCAGGGCCCGCCGTCCTCGCAGGCCCAGACCCCAGTGGACCTCCCCTTTGTCCCGTCGTCGGGACCCACTGGAACCCCTCTAGGGGGCATGGACCATCCCATCCCTGGACACCATCCGTCCAGTGAAGTACAGCGCTTTTCAGACATCATGTCCCACCACCCGGGGGACTCGCCCAGCCCGGAGCCCGGCATCCCTGGACCCCTGCACAGTATGTCCTCTGACGTGTTCGGCCCCAGCCCTTCTTTTACCTCACTGTCCCTCAACGGAAGCGGATACAGCAACCACCTCTCCCACCCCCCGTCGGAAATGAACGAGGCCACAGTCTGGTAGCCTTCTGAAGGTGGACGTTTCTCTAGAGAGAAATTAAGGGACATCAGAAAAGGAAGGGTGGACAGGGgacgcattttttttttgccattcatatttatttatttttttgttgacgtttcttgtttttttgtctttatttctttatcatTTTTGTGCTGAGAGAGTATAAAGAGGTGCAGCAGAGGACATCGTGGCAGTAGACGTTTACCTTGATATTGTGTTGCTGTTCAGTTCTTGTTCTTGTCTCCTCATCAAAGTCAGAACTCGAGCACACAAAAAGACTCATTGCTACTGTTGACCTAATCGCTGTATGGACTGTGCTGTGAGGTTTTAGCACAGCTGAccacccccaacccccccacaCCTTCCCAAAGCCCACTGGTTAAACCCTCACTCTCAAAACAATGATCGCCACATATTAACAGTATTAGCTACTGTCAAAGACTTTAACTTTACAAAGAATGGCCCACGGCGGCTTACCTAACGCTTACCTGCGACGTTGACTCCAGGAAAGATCTGAGCCGTCagactaatttatttatttgaaagctCCTCAGACCTCTTTGCCTTTCAAGGCTCTGCCATATTGACACTTAAACAACCTTTTTGACACTAAATATGTTTCTGGAGGCCAGGGAGagaaaaggctgtttttttccctctaTCTGGACATATCCTTTTGTTTTTCTGAGAATTCCACCAAATCTGACGTTGGCCTTCAAAAGGCAAACAGTAAATGTTGTATGGATTGTGAACCCTTTATTTAATGGAAGAGAACTTGAAATGTTGTTAAATGAAGTCtaccttctaaaaaaaaaaatattttaacgaGGGTCTGAAAGGAACTTAGAACAGTCAACTGTTTAcgtaatatatttaattcaggAGTTAAAAAGTATCAACCATGTTTTAGAACCTCTTGATCCAGATAAAAAAGTTCCAAGCAACCAACCAAACTTTTGTATCgactttatttatattgtatgaagaaaaaaaatgagtttgcTGGGGTTGTGGTTCACTGTGCTAGTTTGTACAAGATGttgtttacagaaaaaaatgggaaaaaggaaaaaaaaaatccaagtaCGTAGACAGTTgccaaataaaaacatagcaCAAATACTGTAAAAGTGCTTTGCACCATTATCTGCAGAACGTGTTGAAACAAAGTGTACGTGTTAAAAAACGATGAGAAGTATTtacttctgattttttttagtctGCTGAAAAGAACATTCATAAATTGttaatataacatacttagacctacaagttttatttttgtgtctTTAAAGGAGAATCCAAACTATTAAAATCAATGGTCAAATGCGCAGCGAGCAGCTGCTAATTTCTTTAAATATCAAATTCTCATGGTATGTCTTTTATTGTTCTAATAAACCTAAGCTTACGTGACCTCCAGTGCATATTAGACCATTCACTGTATAAATACGACATGTTGAACAAATTTGtgagtttttaataaaactagaaaatatgAAATTTGGCTGCTAGATGCTTTTCCTTGGAGTAGCAAATATTCTATTTTTCGGTACAATACAGTCAGCATCTACGGTACATATCAGGAAAGCCAAATTGGATTTGCTTCTTTGCTTCTTCTGTGGATATTGACATTGAGCCAGtgtgtttgctttgttttaGGTCATCACGTTGCATTAGGCGCTATCTTTGACTTGGGAGGCAAATACTGAACCTACGTTTCTCTATAGAGCTTTGATTGGTTGTCAACACATTCATTTCCATAGGGATTTACATCACAGTGATAATACACATGCAGTAGAGACTTGTTTCTGGTATTTGGATGAGATGTGGTGGAGGGGACTGAACGGCTTGGTGTGTTTAATGTTCAGATCCTTGCCAGGAGCGTGATTTTGGTCTAGCACTAGTAGAAGAAGAAGCAAAATCCCTGCAAATATAATCGCCAAATAAATGCCGCCGGCCAGtgtcagggttcctcagtgcagACGTCCAGTATGCAGTGCTTTAGATGAAGCGAACGAGATGAGacgagatgagatgagatgtgtTGTAGGCAGAAGACGAGCTGCTTTGCTTTTATTAGCGGCTGATGCAACGCCTGCCTCTCTGACTGCTGCTTTGTGTCTTTGTGATGGTCAAAGCACATAACCGTTCACTTCTGAACTAATCGATTGGACCACCGAGTCTCACAATGCGCACACAAAAAGGGGCTgatttccttttattttgatcatttctgaggtggctgaaaaaaacagcagtgttGAAAATGAAGGTTTCAACAAAGGTTCTTTGGAGCGATGCTATGCTATACCCTTAAACAAAGTGTTCTTTAAGGGTTCTTTAGTAAATGCAATGGTTGTACTGTATATAGGACTGTGAGGGGTGGCACAAAGAACCAATTGAATGCTTAAATGGTTTTTGTATGGTATGAGAATAAATCCTTTATGTAG

Function

symbol description
lhx1a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including animal organ development; gastrulation; and regulation of transcription, DNA-templated. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Is expressed in several structures, including axis; mesoderm; nervous system; renal system; and shield. Orthologous to human LHX1 (LIM homeobox 1).

NR:

description
PREDICTED: LIM/homeobox protein Lhx1

GO:

id name namespace
GO:0001705 ectoderm formation biological_process
GO:0001706 endoderm formation biological_process
GO:0021527 spinal cord association neuron differentiation biological_process
GO:0072077 renal vesicle morphogenesis biological_process
GO:0090009 primitive streak formation biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:2000744 positive regulation of anterior head development biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0021871 forebrain regionalization biological_process
GO:0061205 paramesonephric duct development biological_process
GO:2000768 positive regulation of nephron tubule epithelial cell differentiation biological_process
GO:0072178 nephric duct morphogenesis biological_process
GO:2000543 positive regulation of gastrulation biological_process
GO:0009953 dorsal/ventral pattern formation biological_process
GO:0021937 cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0097477 lateral motor column neuron migration biological_process
GO:0040019 positive regulation of embryonic development biological_process
GO:0021702 cerebellar Purkinje cell differentiation biological_process
GO:0008045 motor neuron axon guidance biological_process
GO:0090190 positive regulation of branching involved in ureteric bud morphogenesis biological_process
GO:0010842 retina layer formation biological_process
GO:0072049 comma-shaped body morphogenesis biological_process
GO:0072050 S-shaped body morphogenesis biological_process
GO:0060059 embryonic retina morphogenesis in camera-type eye biological_process
GO:0009791 post-embryonic development 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:0003714 transcription corepressor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K09372 LHX1; LIM homeobox protein 1

RNA

RNA id representative length rna type GC content exon number start site end site
TU3680 False 578 TUCP 0.47 3 10662422 10684465
XM_022683024.1 True 4701 mRNA 0.48 5 10654858 10666846

Neighbor

gene id symbol gene type direction distance location
LOC111195496 tekt1 coding downstream 142070 10509040 ~ 10512788 (-)
LOC103040855 NA coding downstream 834949 9817662 ~ 9819909 (-)
LOC103040551 NA coding downstream 840160 9812342 ~ 9814698 (-)
LOC103040232 samsn1 coding downstream 852178 9766040 ~ 9802680 (-)
LOC103039097 serpinh1b,LOC103039097,LOC108433001,LOC108278262,LOC107588392,LOC107756564,LOC107666206 coding downstream 1042140 9606916 ~ 9612718 (-)
LOC111195508 NA coding upstream 68639 10753104 ~ 10756886 (-)
LOC103043674 dhr13,LOC108427000,LOC107685074,LOC107589701,LOC107756995 coding upstream 387933 11072398 ~ 11076365 (-)
LOC103042223 cryba1a,LOC103042223,LOC108426912,LOC107743738,LOC108278232,LOC105898204 coding upstream 396383 11080848 ~ 11083883 (-)
foxn1 foxn1 coding upstream 436342 11120807 ~ 11135302 (-)
lrrc72 NA coding upstream 620125 11304590 ~ 11308672 (-)
G2793 NA non-coding downstream 7734 10646918 ~ 10647124 (-)
G2761 NA non-coding downstream 155586 10421862 ~ 10499272 (-)
G2733 NA non-coding downstream 357245 10296743 ~ 10297613 (-)
G2731 NA non-coding downstream 366176 10275904 ~ 10288682 (-)
G2730 NA non-coding downstream 382333 10271530 ~ 10272525 (-)
G2835 NA non-coding upstream 98683 10783148 ~ 10783487 (-)
G2837 NA non-coding upstream 99339 10783804 ~ 10784140 (-)
G2857 NA non-coding upstream 313387 10997852 ~ 10998080 (-)
G2865 NA non-coding upstream 386568 11071033 ~ 11071239 (-)
G2881 unc119,LOC103043060 non-coding upstream 407705 11092170 ~ 11112806 (-)
G2783 NA other downstream 72111 10582289 ~ 10582747 (-)
rap1gap2 rap1gap2 other downstream 192998 10247465 ~ 10461860 (-)
hspa13 hspa13,LOC107682527,LOC107666191,LOC107714176 other downstream 899103 9746622 ~ 9755755 (-)
LOC103037880 LOC108432996 other downstream 1521287 9113479 ~ 9133571 (-)
nlk nlk2,nlk,LOC107682651,LOC107666197,LOC106581270 other downstream 1562746 8953877 ~ 9092112 (-)
sarm1 sarm1,LOC107669752,LOC107743642,LOC107756984,LOC107685076 other upstream 596744 11281209 ~ 11293882 (-)
LOC111192956 LOC108412924,LOC108444125,LOC108444119,LOC108416439 other upstream 1239537 11924002 ~ 11940744 (-)
G3297 sacs,LOC107593479,LOC107740366,LOC107670382 other upstream 2055679 12740144 ~ 12758513 (-)
sgcg sgcg other upstream 2074601 12759066 ~ 12781165 (-)
LOC111197384 NA other upstream 2445747 13130212 ~ 13135641 (-)

Expression


Co-expression Network