lmx1b (lmx1b,lmx1bb,LOC108434405,LOC107723253,LOC107550585)


Basic Information

Item Value
gene id lmx1b
gene name lmx1b,lmx1bb,LOC108434405,LOC107723253,LOC107550585
gene type coding
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 43458359 ~ 43539305 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007247979.3
tgcatctctttctttctctttatctctctcactcttcgaGCCTCGACGCCAAAACCGTGAGGTTCTTAATGAAGCGAAAAACCCTCCAGCCCTGCCGGTGACAGCCGTAGTGAGACGTGTGTAAAAACGGgcgttttattttgtttctcgGTAGTAATTGAGACTGTGTGCTGTCAGCTGATGTTTATGGGCTTTAGTTCTGGAATCTGAAGCGAGAAAATGCCTGACGAACAAAATATTGTTATGGATATTGCAACAGGTCCTGAGTCCCTGCAGCGGCGCCTCTGCGTGGGGAAAGGCTCGCGGTGTTCAGACATGCTGGACGGAATCAAAATCGAAGACCATCCGCTGCGGACAGGCCAGGCTACTCTCGGAGTCATGCTGGGGCCGGAgtgccatcatcatcatcaccaggCGGTATGCGAGGGCTGCCAACGGCCCATATCTGACCGCTTCCTCATGCGCGTGAACGAGGCCTCGTGGCACGAGGAGTGTCTTCAGTGCGCTGTGTGTCAGCAGCCGCTCACCACCAGCTGCTACCTGCGCGAGCGAAAACTCTACTGCAAGCACGACTACCAACAGTTATTTGCCACCAAATGCAGCGGATGTCTGGAGAAGATCGCGCCCACGGAGTTTGTGATGCGAGCGTTAGAGTGTGTGTACCACCTGaactgcttctgctgctgcgtGTGTGACCGGCAGCTGCGTAAAGGAGACGAGTTTGTTCTGAAGGACGGACAGCTGCTCTGTAAGAGTGACTACGAGAAGGAGAAAGACCTGCTCGGCTCCGTCAGCCCAGACGACTCCGAGTCAGAGAAGAGCGAGGACGAGGAGCTGGATATCAAGCCGGAGAAATGCTCCGGAGGCCCGGGCAAGGGGGACGACAGTAAGGACCCGAGGAGACCCAAGCGTCCCCGCACCATCCTCACCACGCAGCAGAGACGTGCCTTCAAGGCCTCCTTCGAGGTGTCTTCTAAACCCTGCCGGAAGGTAAGAGAGACCCTGGCGGCTGAGACAGGCCTGAGCGTGCGTGTGGTTCAAGTGTGGTTTCAGAACCAGAGAGCTAAGATGAAGAAGTTGGCGCgaagacagcagcagcaacaggagCAACAGAACTCCCAAAGGCTGGGGCAAGAGGTGATGTCCAACCGGATGGAGAGCATGATGAGCTCCTACACACCGCTGGCCCCTGCACAGCAGCAGATGGTGGCCATGGAGAACGGCTACACGGCGGACCCCTTCCAGCAGGGCCTCACCCCTCCTCAGATGCCCGGCGACCACATGAACCCATATGGAAACGACTCCATATTCCACGATATCGACAGCGACACCTCCTTGACCAGCCTCAGCGACTGTTTCTTGGCCTCTTCTGAAGCGGGCTCCCTGCAGGCGCGCGTGGGAAACCCCATCGACCGACTCTACTCCATGCAGAGCTCTTATTTTGCCTCATGAAATCCAACGTGGACAAGGACCAGCAAGAGGAGTGGGCTCACAGCAGCTCACTGCTCCTTTCTGTAAAATGCCTCAGAAACAAGATTTCCCAGCCAAGCTTACGAAAAAAACCCTCCTCACAGACAAAAGGGGAAACATGGGCTCAAATGATACAAACGCAAAGAACTCGAAGACGAGGAGTCCCCTGTTTCTCAGTAGTGAAAAATGCAGCTCAGGACAGCCAGTTTTCTGAAGCTGACAAGACTTTTTCTAGGTAACTGTTGATCGTTTGTACATGACTTTCACCGTAGTAGCACTCAACTCTTCGATGTCCACtcgtggggggaaaaaaaaaaaagagtattgaCATACAGTTGAAAGCCACTGAAGCCACAAACCTCAGTCCACAGCATCCTGCCTAGGAAGGCTGAAGATCAAGACACAGATCTCACAATGCATGAGCCCATACTCTTCGTGAACATGACATCGAGAAAGAAAACCATTAGAAAatagatgagaaaaaaaaaaaaacttgtgttgTTGAGACGTTTAAATGTGATGTTTGGACTCATAAATTCTCTTTTCATTATGTTCAGCATTGCCTTTTTATCACTTTAATAGGTTTAGCTTTGAAAGTGGATTTAGAAATGGTAGAAGGATGAATGTGTAGTGTATTAGctctgtatgagtgtgtgtgagagagaaagagagagaaagagagagagagtgtgtgtgtacgtgtgtatgGCAGAGAGTTTGTGTAcaagtgtatgtatgtgtatagacatgagtaaagctgtatgtgtaTCTCTCTGGGCGTGCGTgcgtatgtatgtgtatgtgtatgtgtatgtgtgtgtgtgtgtgcgtgtgcttCAGTTCGTCCTAGTTTGAAAGATGGTGAGAGATGATGGACTGTGTGAGCTCTATACttgtgtaaatatatgtttcCTGAACAAATCAGTTGTGCATGTTCAAAATGGAGATCattctatttatttaactacAACATGCTCTTGAAGGTacttaaaaaactgaaaagcttTATTTAAAGAGGAGAAAACCATGTCAGGCAGTTAAAAGCATCGTCATCCTTCACCCATCTATCTTTTAATTATGAGATATGACCCTTTCCTCAGCTATGATGTACATCAGCAAAAGTGTGCTATTTATTTGTTACAGGCCCTAAACATTGTCGAAAATGCATTTCCAAATGTGAAGACTGCTAAATTACCAAAGTTTGTTGGTACTATGAATAAACTCCATTTCTCCTGA
>XM_015605510.2
CTCAGGCTTAGGGCTTCGTGAACGCGGCGGATCTCAATGGCACACTCATTTAAACGCTTACAGCCGTGACATCTCAGTCGCACTGTTTTGGATTTTACTCGTTTGTTGCTGTTTTGGTGCGCGAGGCCGCTCGAGTTTCTGCGTTCAGAGAGGGAGGATCCTTCTGTGCACTTCAGGACAGCGGCCCGGATACAACCAAACTTCTGTGCGGTGCAAAGTAGAAAAACACTGTCCAGCCGCGCGTACTCCTCATTAGCAGGTCCTGAGTCCCTGCAGCGGCGCCTCTGCGTGGGGAAAGGCTCGCGGTGTTCAGACATGCTGGACGGAATCAAAATCGAAGACCATCCGCTGCGGACAGGCCAGGCTACTCTCGGAGTCATGCTGGGGCCGGAgtgccatcatcatcatcaccaggCGGTATGCGAGGGCTGCCAACGGCCCATATCTGACCGCTTCCTCATGCGCGTGAACGAGGCCTCGTGGCACGAGGAGTGTCTTCAGTGCGCTGTGTGTCAGCAGCCGCTCACCACCAGCTGCTACCTGCGCGAGCGAAAACTCTACTGCAAGCACGACTACCAACAGTTATTTGCCACCAAATGCAGCGGATGTCTGGAGAAGATCGCGCCCACGGAGTTTGTGATGCGAGCGTTAGAGTGTGTGTACCACCTGaactgcttctgctgctgcgtGTGTGACCGGCAGCTGCGTAAAGGAGACGAGTTTGTTCTGAAGGACGGACAGCTGCTCTGTAAGAGTGACTACGAGAAGGAGAAAGACCTGCTCGGCTCCGTCAGCCCAGACGACTCCGAGTCAGAGAAGAGCGAGGACGAGGAGCTGGATATCAAGCCGGAGAAATGCTCCGGAGGCCCGGGCAAGGGGGACGACAGTAAGGACCCGAGGAGACCCAAGCGTCCCCGCACCATCCTCACCACGCAGCAGAGACGTGCCTTCAAGGCCTCCTTCGAGGTGTCTTCTAAACCCTGCCGGAAGGTAAGAGAGACCCTGGCGGCTGAGACAGGCCTGAGCGTGCGTGTGGTTCAAGTGTGGTTTCAGAACCAGAGAGCTAAGATGAAGAAGTTGGCGCgaagacagcagcagcaacaggagCAACAGAACTCCCAAAGGCTGGGGCAAGAGGTGATGTCCAACCGGATGGAGAGCATGATGAGCTCCTACACACCGCTGGCCCCTGCACAGCAGCAGATGGTGGCCATGGAGAACGGCTACACGGCGGACCCCTTCCAGCAGGGCCTCACCCCTCCTCAGATGCCCGGCGACCACATGAACCCATATGGAAACGACTCCATATTCCACGATATCGACAGCGACACCTCCTTGACCAGCCTCAGCGACTGTTTCTTGGCCTCTTCTGAAGCGGGCTCCCTGCAGGCGCGCGTGGGAAACCCCATCGACCGACTCTACTCCATGCAGAGCTCTTATTTTGCCTCATGAAATCCAACGTGGACAAGGACCAGCAAGAGGAGTGGGCTCACAGCAGCTCACTGCTCCTTTCTGTAAAATGCCTCAGAAACAAGATTTCCCAGCCAAGCTTACGAAAAAAACCCTCCTCACAGACAAAAGGGGAAACATGGGCTCAAATGATACAAACGCAAAGAACTCGAAGACGAGGAGTCCCCTGTTTCTCAGTAGTGAAAAATGCAGCTCAGGACAGCCAGTTTTCTGAAGCTGACAAGACTTTTTCTAGGTAACTGTTGATCGTTTGTACATGACTTTCACCGTAGTAGCACTCAACTCTTCGATGTCCACtcgtggggggaaaaaaaaaaaagagtattgaCATACAGTTGAAAGCCACTGAAGCCACAAACCTCAGTCCACAGCATCCTGCCTAGGAAGGCTGAAGATCAAGACACAGATCTCACAATGCATGAGCCCATACTCTTCGTGAACATGACATCGAGAAAGAAAACCATTAGAAAatagatgagaaaaaaaaaaaaacttgtgttgTTGAGACGTTTAAATGTGATGTTTGGACTCATAAATTCTCTTTTCATTATGTTCAGCATTGCCTTTTTATCACTTTAATAGGTTTAGCTTTGAAAGTGGATTTAGAAATGGTAGAAGGATGAATGTGTAGTGTATTAGctctgtatgagtgtgtgtgagagagaaagagagagaaagagagagagagtgtgtgtgtacgtgtgtatgGCAGAGAGTTTGTGTAcaagtgtatgtatgtgtatagacatgagtaaagctgtatgtgtaTCTCTCTGGGCGTGCGTgcgtatgtatgtgtatgtgtatgtgtatgtgtgtgtgtgtgtgcgtgtgcttCAGTTCGTCCTAGTTTGAAAGATGGTGAGAGATGATGGACTGTGTGAGCTCTATACttgtgtaaatatatgtttcCTGAACAAATCAGTTGTGCATGTTCAAAATGGAGATCattctatttatttaactacAACATGCTCTTGAAGGTacttaaaaaactgaaaagcttTATTTAAAGAGGAGAAAACCATGTCAGGCAGTTAAAAGCATCGTCATCCTTCACCCATCTATCTTTTAATTATGAGATATGACCCTTTCCTCAGCTATGATGTACATCAGCAAAAGTGTGCTATTTATTTGTTACAGGCCCTAAACATTGTCGAAAATGCATTTCCAAATGTGAAGACTGCTAAATTACCAAAGTTTGTTGGTACTATGAATAAACTCCATTTCTCCTGA
>XM_015605511.2
TTCTGAATGGCTGTAATCACTGCTGGTGTCCATCGCGTGCCTATATTACTCTGTCAGTCACTTTATGGTGAAACCATGCCAGCGCTTTGCCTGACTGCGATGCAGTGCAAACTTTAGCCGATGGAGGGCGAAGCGCAGTGTGCTCAGTAGATAATGGAGCACAGGGGCGTTCTTCACAGCCACTACAGAAGAGAAGAAGCGAACCCATGACGGCGAGGTCCTGAGTCCCTGCAGCGGCGCCTCTGCGTGGGGAAAGGCTCGCGGTGTTCAGACATGCTGGACGGAATCAAAATCGAAGACCATCCGCTGCGGACAGGCCAGGCTACTCTCGGAGTCATGCTGGGGCCGGAgtgccatcatcatcatcaccaggCGGTATGCGAGGGCTGCCAACGGCCCATATCTGACCGCTTCCTCATGCGCGTGAACGAGGCCTCGTGGCACGAGGAGTGTCTTCAGTGCGCTGTGTGTCAGCAGCCGCTCACCACCAGCTGCTACCTGCGCGAGCGAAAACTCTACTGCAAGCACGACTACCAACAGTTATTTGCCACCAAATGCAGCGGATGTCTGGAGAAGATCGCGCCCACGGAGTTTGTGATGCGAGCGTTAGAGTGTGTGTACCACCTGaactgcttctgctgctgcgtGTGTGACCGGCAGCTGCGTAAAGGAGACGAGTTTGTTCTGAAGGACGGACAGCTGCTCTGTAAGAGTGACTACGAGAAGGAGAAAGACCTGCTCGGCTCCGTCAGCCCAGACGACTCCGAGTCAGAGAAGAGCGAGGACGAGGAGCTGGATATCAAGCCGGAGAAATGCTCCGGAGGCCCGGGCAAGGGGGACGACAGTAAGGACCCGAGGAGACCCAAGCGTCCCCGCACCATCCTCACCACGCAGCAGAGACGTGCCTTCAAGGCCTCCTTCGAGGTGTCTTCTAAACCCTGCCGGAAGGTAAGAGAGACCCTGGCGGCTGAGACAGGCCTGAGCGTGCGTGTGGTTCAAGTGTGGTTTCAGAACCAGAGAGCTAAGATGAAGAAGTTGGCGCgaagacagcagcagcaacaggagCAACAGAACTCCCAAAGGCTGGGGCAAGAGGTGATGTCCAACCGGATGGAGAGCATGATGAGCTCCTACACACCGCTGGCCCCTGCACAGCAGCAGATGGTGGCCATGGAGAACGGCTACACGGCGGACCCCTTCCAGCAGGGCCTCACCCCTCCTCAGATGCCCGGCGACCACATGAACCCATATGGAAACGACTCCATATTCCACGATATCGACAGCGACACCTCCTTGACCAGCCTCAGCGACTGTTTCTTGGCCTCTTCTGAAGCGGGCTCCCTGCAGGCGCGCGTGGGAAACCCCATCGACCGACTCTACTCCATGCAGAGCTCTTATTTTGCCTCATGAAATCCAACGTGGACAAGGACCAGCAAGAGGAGTGGGCTCACAGCAGCTCACTGCTCCTTTCTGTAAAATGCCTCAGAAACAAGATTTCCCAGCCAAGCTTACGAAAAAAACCCTCCTCACAGACAAAAGGGGAAACATGGGCTCAAATGATACAAACGCAAAGAACTCGAAGACGAGGAGTCCCCTGTTTCTCAGTAGTGAAAAATGCAGCTCAGGACAGCCAGTTTTCTGAAGCTGACAAGACTTTTTCTAGGTAACTGTTGATCGTTTGTACATGACTTTCACCGTAGTAGCACTCAACTCTTCGATGTCCACtcgtggggggaaaaaaaaaaaagagtattgaCATACAGTTGAAAGCCACTGAAGCCACAAACCTCAGTCCACAGCATCCTGCCTAGGAAGGCTGAAGATCAAGACACAGATCTCACAATGCATGAGCCCATACTCTTCGTGAACATGACATCGAGAAAGAAAACCATTAGAAAatagatgagaaaaaaaaaaaaacttgtgttgTTGAGACGTTTAAATGTGATGTTTGGACTCATAAATTCTCTTTTCATTATGTTCAGCATTGCCTTTTTATCACTTTAATAGGTTTAGCTTTGAAAGTGGATTTAGAAATGGTAGAAGGATGAATGTGTAGTGTATTAGctctgtatgagtgtgtgtgagagagaaagagagagaaagagagagagagtgtgtgtgtacgtgtgtatgGCAGAGAGTTTGTGTAcaagtgtatgtatgtgtatagacatgagtaaagctgtatgtgtaTCTCTCTGGGCGTGCGTgcgtatgtatgtgtatgtgtatgtgtatgtgtgtgtgtgtgtgcgtgtgcttCAGTTCGTCCTAGTTTGAAAGATGGTGAGAGATGATGGACTGTGTGAGCTCTATACttgtgtaaatatatgtttcCTGAACAAATCAGTTGTGCATGTTCAAAATGGAGATCattctatttatttaactacAACATGCTCTTGAAGGTacttaaaaaactgaaaagcttTATTTAAAGAGGAGAAAACCATGTCAGGCAGTTAAAAGCATCGTCATCCTTCACCCATCTATCTTTTAATTATGAGATATGACCCTTTCCTCAGCTATGATGTACATCAGCAAAAGTGTGCTATTTATTTGTTACAGGCCCTAAACATTGTCGAAAATGCATTTCCAAATGTGAAGACTGCTAAATTACCAAAGTTTGTTGGTACTATGAATAAACTCCATTTCTCCTGA

Function

symbol description
lmx1bb 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 animal organ development and glutamatergic neuron differentiation. Predicted to be active in nucleus. Is expressed in several structures, including axis; midbrain hindbrain boundary neural keel; midbrain hindbrain boundary neural rod; nervous system; and otic vesicle. Human ortholog(s) of this gene implicated in focal segmental glomerulosclerosis and nail-patella syndrome. Orthologous to human LMX1B (LIM homeobox transcription factor 1 beta).
lmx1b Enables DNA-binding transcription factor activity and sequence-specific double-stranded DNA binding activity. Involved in regulation of transcription, DNA-templated. Located in nucleus. Implicated in focal segmental glomerulosclerosis and nail-patella syndrome.

NR:

description
PREDICTED: LIM/homeobox protein LMX-1.2-like isoform X1

GO:

id name namespace
GO:0061386 closure of optic fissure biological_process
GO:0048752 semicircular canal morphogenesis biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060117 auditory receptor cell development biological_process
GO:0021592 fourth ventricle development biological_process
GO:0032474 otolith morphogenesis biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0030917 midbrain-hindbrain boundary 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:0008270 zinc ion binding molecular_function

KEGG:

id description
K09371 LMX1; LIM homeobox transcription factor 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007247979.3 False 2706 mRNA 0.49 8 43458359 43535661
XM_015605510.2 True 2706 mRNA 0.49 9 43458359 43535936
XM_015605511.2 False 2664 mRNA 0.49 9 43458359 43539305

Neighbor

gene id symbol gene type direction distance location
zbtb34 zbtb34,LOC108412531,LOC107727329,LOC107723248,LOC107727326 coding downstream 91898 43345499 ~ 43366461 (-)
ralgps1 ralgps1,LOC108412534,LOC107669254,LOC107727327 coding downstream 117979 43187260 ~ 43340380 (-)
LOC111192716 NA coding downstream 295977 43161235 ~ 43162382 (-)
LOC103021400 NA coding downstream 297031 43152960 ~ 43161328 (-)
map3k12 map3k12,LOC107711606,LOC107715569,LOC107663586 coding downstream 370488 43063287 ~ 43087871 (-)
LOC103023596 NA coding upstream 24427 43563732 ~ 43638989 (-)
LOC103029164 pbx3b,pbx3,LOC108434408,LOC107550583,LOC107669256,LOC107555108 coding upstream 379924 43919229 ~ 44038635 (-)
gapvd1 gapvd1,LOC107550582,LOC107723237 coding upstream 710692 44249997 ~ 44307835 (-)
LOC103031368 NA coding upstream 788938 44328243 ~ 44341154 (-)
LOC103031680 syn1,LOC107667541,LOC107724908 coding upstream 834996 44374301 ~ 44424518 (-)
G58510 NA non-coding downstream 11635 43446516 ~ 43446724 (-)
G58509 NA non-coding downstream 63245 43374336 ~ 43395114 (-)
G58490 NA non-coding downstream 122741 43278792 ~ 43335618 (-)
G58475 NA non-coding downstream 287223 43170134 ~ 43171136 (-)
G58476 NA non-coding downstream 288667 43168556 ~ 43169692 (-)
G58530 NA non-coding upstream 121473 43660778 ~ 43664015 (-)
G58544 NA non-coding upstream 245410 43784715 ~ 43784926 (-)
G58546 NA non-coding upstream 260531 43799836 ~ 43800041 (-)
G58549 NA non-coding upstream 288928 43828233 ~ 43828440 (-)
G58568 NA non-coding upstream 443447 43982752 ~ 43983922 (-)
G58435 aaas other downstream 350736 43102870 ~ 43107623 (-)
G58022 LOC103032860,LOC108432146 other downstream 2059881 41396086 ~ 41398478 (-)
tprg1l tprg1l,LOC107710788,LOC107678419,LOC107698845,LOC106513028 other downstream 2702345 40748741 ~ 40756014 (-)
LOC103037008 LOC108442081,LOC105022382,LOC106567250 other downstream 3279218 40165400 ~ 40179141 (-)
G57727 kdm5c,LOC107550909,LOC107747206,LOC107570512 other downstream 3339264 40117789 ~ 40119095 (-)
G58537 NA other upstream 143019 43682324 ~ 43682684 (-)
G58649 NA other upstream 828595 44367900 ~ 44368368 (-)
G58678 NA other upstream 934854 44474159 ~ 44477666 (-)
snrnp200 snrnp200,LOC107686403,LOC107602857,LOC107667532,LOC107600001,LOC108265067 other upstream 1047001 44586306 ~ 44622074 (-)
G58868 NA other upstream 1521804 45061109 ~ 45061674 (-)

Expression


Co-expression Network