lmx1al (lmx1al,LOC108256788,LOC108429662,LOC107672514,LOC107670451,LOC103034908,LOC100696700)


Basic Information

Item Value
gene id lmx1al
gene name lmx1al,LOC108256788,LOC108429662,LOC107672514,LOC107670451,LOC103034908,LOC100696700
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047617.1
NCBI id CM018563.1
chromosome length 20335669
location 4528819 ~ 4565281 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026946084.2
TGTAGCTCCATTGTGTGTTGCGGCTCTTCACCCGGACACACAGCGCGCGCGCCCGCAGGATTTTTAACTCCAACTTCCGCTGCGGTTTGGTTTCTGTGTTGAGGCTGAGAGTGGAGTTTAAACACACATCGCTGCTTCTGCTCATCTTCTCCCTCATCcgcatcctcctcatcctcatcacgAGTGCACGTGATCCCCGGTGTCTTTGATGTTACCTACAGAAAGCTCGGGAGGAGTGTGTTTCACCGTCAGtCAGCACTCAGAAGGAGGCCCGAACGGTATGAAAACAGAGGAAAACCAGTCATGTCTGCAGCAGGCTCCGTCTTCCACACCTTTTGagCATGTGGGCggaggtgaggtgtgtgcaggGTGTGAGTCACCCATCGCTGACCGCTTCCTCCTGCGCGTGAACGATCAGTCGTGGCACGAGACGTGTGTGAAGTGTGCCGTGTGTCTGAGCACGCTCAGTGGGACGTGCTACTCCCGAGACCGGCTGCTCTACTGCAAACACGACTACGAGAAgctgtTTGTGCGGAAGTGCAGTGCTTGCCTGCAGGTGATTGGCCGCTCAGAGCTGATCATGCGTGTGCTGGGGCAGGTGTATCACCTGGGCTGCTTCAGCTGCTGCGAGTGTGAGCGCCGGCTCCAGAGGGGTGACGAGTTTGTGCTTAAGGAAGGTCAGCTGCTCTGCCGTGGGGATtatgagaaggagagagagatgcttgCTGCCATCAGCCCCGCCCCCACCGAGTCTGTGAAGAGCGAGGATGAAGAAGGAGGCAGCAGCTCCATGGGAGGAAAAGCTGGTGATGATAGTAAAGAGCACAAGAGATCCAAGCGGCCGCGCACCATTTTAACCACACAGCAGCGCCGCGCCTTCAAGGCGTCCTTCGAGGTGTCCTCCAAACCCTGCCGAAAGGTGAGAGAGACCTTAGCAGCTGAAACTGGGCTGACGGTCCGAGTCGTCCAGGTCTGGTTCCAAAACCAGAGAGCGAAGATGAAGAAAATCGCTCGCaggcagcagcaacagcagcagcagcaggagcaggagcagatCAGCGGCAGCAGCAGGAGGGGTCCGAGCAGAGGAGGACGACTGAGTAACGACGACAGCGAGGGTGAGACGCCATACGGCTCGAGCAGTCACGGCTTAGACGGCATGCTCTCATACTCCTCCATGCCACGACAGCAGCTCTTGGCTCTCGACCCAAACCTGTACGGGGGTGAGCAGTTCCGGCACGGTCTCACACCCCCGCAGCTAGGCCCCGAGCAGATGCACCCATACGACTCAGAAACCGTTTTCCACGACTTGGACAGCGATGGAAGCCTGGGTCACCTCGGCGATTGTCTCTTGGCGACGGCAGAGGGAGGGGTGCTGGCAGGACGCGTGGGAAATCCAATTGACCGCCTGTATTCGATGCAAAACTCCTACTTCACCTCGTGACCCCTCTTCACCTCTGACCCCAGACTAACTCCACCACAGTCCACAAGAGAAGcagcaaacaaacagacaaagcCACGCTCAAAGCCCAGCGTGTTTGCCCAACTAAGCCTGCAGGATCTCTCATCCCGCAATCACACACGAGTTTACGTCAGTCATGATCCTGTAGGAATACCgttataaaatgatttaaatagcaaacaggaaatgatgcgGTTTAGGGTTCGACTAGGAATAAGATCATTGTAGCCTCATGGCTTAATcaatattaatacacacacacacacacacactcacacatttatGTCATAGGCATGCTGAATGTTCGATTAGGCAGCTGATCACCAACGTTTTACCTCATCATCCGTCTCAAACAGTCCAAACAAAATTCATTCACAAATCCATCGTTtgccaaaaaaa
>XM_026946085.2
TGTAGCTCCATTGTGTGTTGCGGCTCTTCACCCGGACACACAGCGCGCGCGCCCGCAGGATTTTTAACTCCAACTTCCGCTGCGGTTTGGTTTCTGTGTTGAGGCTGAGAGTGGAGTTTAAACACACATCGCTGCTTCTGCTCATCTTCTCCCTCATCcgcatcctcctcatcctcatcacgAGTGCACGTGATCCCCGGTGTCTTTGATGTTACCTACAGAAAGCTCGGGAGGAGTGTGTTTCACCGTCAGtCAGCACTCAGAAGGAGGCCCGAACGGTATGAAAACAGAGGAAAACCAGTCATGTCTGCAGCAGGCTCCGTCTTCCACACCTTTTGagCATGTGGGCggaggtgaggtgtgtgcaggGTGTGAGTCACCCATCGCTGACCGCTTCCTCCTGCGCGTGAACGATCAGTCGTGGCACGAGACGTGTGTGAAGTGTGCCGTGTGTCTGAGCACGCTCAGTGGGACGTGCTACTCCCGAGACCGGCTGCTCTACTGCAAACACGACTACGAGAAgctgtTTGTGCGGAAGTGCAGTGCTTGCCTGCAGGTGATTGGCCGCTCAGAGCTGATCATGCGTGTGCTGGGGCAGGTGTATCACCTGGGCTGCTTCAGCTGCTGCGAGTGTGAGCGCCGGCTCCAGAGGGGTGACGAGTTTGTGCTTAAGGAAGGTCAGCTGCTCTGCCGTGGGGATtatgagaaggagagagagatgcttgCTGCCATCAGCCCCGCCCCCACCGAGTCTGTGAAGAGCGAGGATGAAGAAGGAGGCAGCAGCTCCATGGGAGGAAAAGCTGGTGATGATAGTAAAGAGCACAAGAGATCCAAGCGGCCGCGCACCATTTTAACCACACAGCAGCGCCGCGCCTTCAAGGCGTCCTTCGAGGTGTCCTCCAAACCCTGCCGAAAGGTGAGAGAGACCTTAGCAGCTGAAACTGGGCTGACGGTCCGAGTCGTCCAGGTCTGGTTCCAAAACCAGAGAGCGAAGATGAAGAAAATCGCTCGCaggcagcagcaacagcagcagcagcaggagcaggagcagatCAGCGGCAGCAGCAGGAGGGGTCCGAGCAGAGGAGGACGACTGAGTAACGACGACAGCGAGGACGGCTCGAGCAGTCACGGCTTAGACGGCATGCTCTCATACTCCTCCATGCCACGACAGCAGCTCTTGGCTCTCGACCCAAACCTGTACGGGGGTGAGCAGTTCCGGCACGGTCTCACACCCCCGCAGCTAGGCCCCGAGCAGATGCACCCATACGACTCAGAAACCGTTTTCCACGACTTGGACAGCGATGGAAGCCTGGGTCACCTCGGCGATTGTCTCTTGGCGACGGCAGAGGGAGGGGTGCTGGCAGGACGCGTGGGAAATCCAATTGACCGCCTGTATTCGATGCAAAACTCCTACTTCACCTCGTGACCCCTCTTCACCTCTGACCCCAGACTAACTCCACCACAGTCCACAAGAGAAGcagcaaacaaacagacaaagcCACGCTCAAAGCCCAGCGTGTTTGCCCAACTAAGCCTGCAGGATCTCTCATCCCGCAATCACACACGAGTTTACGTCAGTCATGATCCTGTAGGAATACCgttataaaatgatttaaatagcaaacaggaaatgatgcgGTTTAGGGTTCGACTAGGAATAAGATCATTGTAGCCTCATGGCTTAATcaatattaatacacacacacacacacacactcacacatttatGTCATAGGCATGCTGAATGTTCGATTAGGCAGCTGATCACCAACGTTTTACCTCATCATCCGTCTCAAACAGTCCAAACAAAATTCATTCACAAATCCATCGTTtgccaaaaaaa

Function

symbol description
lmx1al 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 neuron 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 diencephalon; epiphysis; hindbrain; midline column; and superior raphe nucleus.

NR:

description
LIM homeobox transcription factor 1-alpha-like isoform X2

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
K09371 LMX1; LIM homeobox transcription factor 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026946084.2 True 1861 mRNA 0.55 9 4528819 4565281
XM_026946085.2 False 1849 mRNA 0.55 9 4528819 4565281

Neighbor

gene id symbol gene type direction distance location
gmip gmip coding upstream 4719 4498517 ~ 4524100 (+)
colgalt1a LOC108257422,LOC108429625,LOC107757371,LOC107670492,LOC107672476,LOC107711180,LOC107567242 coding upstream 34373 4477813 ~ 4494446 (+)
pgls pgls coding upstream 51847 4471731 ~ 4476972 (+)
LOC113546278 LOC108256875 coding upstream 76900 4445929 ~ 4451919 (+)
slc27a1a slc27a1,LOC107757377,LOC107670527,LOC107567246,LOC107672489,LOC107711240 coding upstream 93854 4415771 ~ 4434965 (+)
atp13a1 atp13a1 coding downstream 10335 4575616 ~ 4597433 (+)
LOC113546190 LOC108257430 coding downstream 33869 4599150 ~ 4611600 (+)
xab2 xab2,LOC102796593 coding downstream 216010 4781291 ~ 4794558 (+)
camsap3 camsap3 coding downstream 233060 4798341 ~ 4840522 (+)
LOC113546287 rdh8,LOC108257005,LOC108429652,LOC105905727,LOC107563320 coding downstream 312114 4877395 ~ 4887345 (+)
G338164 NA non-coding upstream 158608 4339204 ~ 4370211 (+)
G338147 NA non-coding upstream 202324 4326052 ~ 4326495 (+)
G338116 NA non-coding upstream 260364 4268246 ~ 4268455 (+)
G338057 NA non-coding upstream 272920 4255557 ~ 4255899 (+)
G337381 LOC108257371,LOC108257372,LOC108429690,LOC103024650,LOC107599305,LOC107670512,LOC107728686 non-coding upstream 485630 3936171 ~ 4043189 (+)
G338252 NA non-coding downstream 112236 4677517 ~ 4679625 (+)
G338246 NA non-coding downstream 152916 4718197 ~ 4731105 (+)
G338658 NA non-coding downstream 676044 5241325 ~ 5241584 (+)
LOC117595846 NA non-coding downstream 811925 5377206 ~ 5386152 (+)
G338683 NA non-coding downstream 822707 5387988 ~ 5392192 (+)
G338163 NA other upstream 173790 4352522 ~ 4355029 (+)
rsad1 rsad1 other upstream 203783 4307922 ~ 4325036 (+)
LOC113546300 LOC108280069,LOC108261210,LOC108257281,LOC108257282,LOC108257284,LOC108257326,LOC108257286,LOC108257289 other upstream 2136282 2358116 ~ 2392537 (+)
LOC117595892 LOC108257284,LOC108257282,LOC108257281,LOC108257289,LOC108257310,LOC108272567,LOC108261104,LOC108280065,LOC108272472,LOC108261175,LOC108279530,LOC100526730,LOC108257326,LOC108257286,LOC108261265 other upstream 2177070 2185892 ~ 2351749 (+)
pbx4 pbx4,LOC107757367,LOC107672472,LOC107670485,LOC103392870,LOC102788435 other downstream 51043 4616324 ~ 4668256 (+)
brd4 LOC108257120,LOC108429657 other downstream 132976 4698257 ~ 4752669 (+)
LOC113546199 pet100,LOC107672445,LOC107563330,LOC107587949 other downstream 192533 4757814 ~ 4762602 (+)
stxbp2 stxbp2,LOC107670524,LOC107587946,LOC107711254,LOC107757364 other downstream 196032 4761313 ~ 4780386 (+)
LOC113535938 tmem196,LOC106588729,LOC107667578,LOC107568813,LOC107755951,LOC107571147,LOC107655099 other downstream 1768708 6333989 ~ 6343909 (+)

Expression


Co-expression Network