XLOC_036571 (lmx1bb)


Basic Information

Item Value
gene id XLOC_036571
gene name lmx1bb
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 33258580 ~ 33381913 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00071436
GTCTAGGACGGCGCTTCCTTGCAGGTAACATTGGGAATATTTAAAGATGTTGGACGGTATAAAAATCGAAGATCATCCGCTGCGGTCGGGACAAGCAACACTTGGAGTTATGCTCGGGACGGAGTGCCATCACCAGGCGGTGTGTGAGGGGTGCCAGCGGCCGATATCCGACCGCTTTCTGATGCGCGTCAACGAGTCTTCATGGCACGAGGAGTGTTTGCAATGCGCCGTGTGTCAACAACCGCTCACCACCAGCTGCTACTTCCGGGAGAGGAAACTTTACTGCAAATATGACTACCAACAGTTATTTGCGACCAAATGCAGCGGATGCCTGGAGAAAATTGCACCTACAGAATTTGTGATGCGGGCGCTGGAGTGTGTTTACCATCTCAACTGCTTCTGCTGCTGTGTATGTGACCGACAGCTGAGGAAAGGAGATGAGTTTGTGCTGAAGGACGGACAGTTGCTGTGCAAGAGCGATTATGAGAGGGAAAAAGACCTGCTCGGCTCTGTCAGCCCAGATGACTCAGATTCAGAGAAAAGCGAAGATGAGGAGCTGGATATCAAGCCGGAGAAAGGCTCGGGAGGCACCGGGAAGGGAGATGATGGGAAAGACCCTAGAAGACCCAAGAGACCACGTACCATCCTCACCACACAGCAGAGACGAGCCTTCAAGGCGTCGTTCGAGGTGTCTTCCAAACCCTGCCGGAAGGTAAGAGAGACACTGGCTGCAGAGACAGGTCTGAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAGATGAAGAAGTTGGCGCGGAGACAGCAGCAGCAACAGGAGCAGCAGAACTCCCAAAGGCTGGGCCAAGAGGTAATGTCCAATCGGATGGAGGGTATGATGAACTCCTACACACCATTGGCTCCAGCCCAGCAGCAAATGGTTGCACTGGAGAACGGCTACAGCACCGACCCCTTCCAGCAGGGCCTCACCCCTCCTCAGATGCCCGGTGACCACATGAACCCATATGGAAATGACTCGATATTCCACGACATTGACAGCGACACTTCTCTGACCAGCCTCAGTGACTGCTTTATGGCCTCGTCTGACGCGGGATCCATGCAGGCCCGAGTGGGAAACCCCATCGACCGACTCTACTCCATGCAGAGCTCCTATTTCGCCTCATGAAAGCACACTCGCTGCAGCTCACACCAGTCACTCGCCGCCTATCAAGGGAACACGCGCTCGCTCGACAAAAAAGACGAGACACCAGAAACAAGACAAGTGAACTTCCCTACCCTACAATGGACGTCCAGAAGCTGACATTTCTTCCTTTTCTAGTTACATGTAGATCGTTTGTACATGACTTTCTGAGAAGTAGCATTTCACTTAATCCTCATGGACTTGTGGAGAGGGAGAAAAAACACACTAAAAGGGTATCGGTGTACAGTTTGATGTAACTGAAGCATCAAGACTCGTGACTTTCCAGAAGATCAACACATAAAGCTCATAATGCATGAATCCATATCTTTGTGATTGTTacgtttaaaagaagaaaaaaatagattagaaaaaaaatcttgtgttgtTCAGATGTTGAAATGTGATGTTCGGACTCATAATTTGCTCTTTTCGTTATGTTCAGCATTGCATTTTTTTCCTCACTTTAATAGTTTAGCCCTTCTGAAAGACGATGTAGAAAAAGCTTAGAGGGGGAGATTATGTATAGTGTATCTGCATttaagtatgtatgtgtgtatgtgagaatgagtgtgtgatGGAAAGGTACTGTCATTGAAAGCTCGATCCATGTGTATATATACTTTTCCCAAGCGAATCAGTTGTGCATGTTAAAAATGGAGATCATTctatttatttaactaaaacatgCTTTTTGAAGGTACTTGCGAAACTGaaaagctttatttaaaaaaggagAAAACCATCTTTAAGTCATTTCACAACACATTTGTGTGTCTTTAAATTAGGAAATACATTGTATCTTTATTCCAGCAATGTACATCTGTGGAAAGTGGAAGAAAAAAGTGCTATTTATTTGTTTCAGCCCATGACATTgccgaaaaaaaaatgcattcccAAATGAGAAGATTGCTAATTTGCCAAAGTCTGTTGGTACAATGAATAAAGTCTGTTTCTCCTTGATTTTTTAGCTTCCACAAGAGTAATTGGactacttatttacatttttttttagaattttttttttgaaaactttcTAATTTTTTTTCCTTGAACATGATATGTTGAACACATGATCATCATTCTAAATCAcctcaaatttaaaatatatattatattttttataaatattttataaagtatatttacatttctttacatacaataataataaccttaCTTTTATATAGCGCTTCTCtggaaacattttacatttttgggggggaattttctcatccaccaccagtgtgcagcatccacctggatgacacaacagcagccatattgcaccagacctcacaccacacaccagcagaTTAGTGGAAAGGAGACAGAGGGATGGagtcaattatgatatgggaatggATTAGCTCTCTGCATCTCTCACATGGTCACCAAGTGAAGCTAAGGGCCAACTCACACTatactatccgaaccgtgcccaggcccattttccagattgtttgagaagtgtgagtgctctgaattggccTCAGGCAAgcttcacttggccggccctggcccagttgaaaaaggtgtgccagagcgcggttcacttggttgtagtgtgagtgcaaagtgcgccagagcccaaaactgaagacgagacatgacttttaagggactgtttgatatggatttattaatcattcttaatgttcaatgaacgcaaactgtcgtagattattgaAGATGCAAACCCCTTTACTGCACggcagctgcaccttcagcaaacctcctaattcctgcagcaagaggactttatgattgcttatgagcgtcaaaactggctgatctgttcggcgaaatatttaaCTGCGTGTCATTTCATCTCAAGCAACTAAACtgatataactaaataaatatccaCTATGCTGAGCAAAAGTGCTTACTGTACAGCAcagttttgttttgaaatttgtgagaCGAaagttgtccaataataaacccgaaACACATGTGATTGTTGTCATGCGGTGAACTcaggccaatcgtgtaatatcggtgtcgtcatctcAGCTCCTGCTGTCGCTCTTCAGATGCTACATCGGCTGAaaaaagctacggtcacactagagtttgtgtgtgcgaaattctgtcctGAGGCGCTGCAAAAACgggcaagtggtgctcgctgcagagccatttgggcaagctgagctccagcgagggggagcttgagcttaagctccaccttttttgcacttcttctacgagtgatgtcactggtggtagggttaggggtggggttggtgtacgcattaaaacagcttacaggaggaggagcgagagctcatgctccccctcgctggagctcagctctgctcaaatggctctgcagcgagcaccctctcaaaacgggcgggattaaacaagcttattagacatttttaaaagcgagcgatggctcaatgttttaaatttctgtgcaGAGAGGTcttgttttgatcctcggttggtctcacgaAGGTCGGGAGCCCAGTCTCACGAAGGTCGGGAGCGCAGtgatgtgaacgcagcataaaaaTATTCACtagcaaaacattttatttatcacatAATAATTCCTTAAATAAATTTATGATCAGTTAAAACAAATTATGGTGTGTAAACCTTAAGTTACAAC
>TCONS_00071437
GAGCTTTCTCAAGCTGCAGGGAGCCGAATGGCGCACTAATTTAAGAGTTAACGTTTAGACATCTCCTTTAGGTTTTCGTGGATTTTACTAATTTCCTAAAAACTTCTGCGGGTTGAGACGACTTGTGCACGGTGTAGGAAAGGGAGGATCTTCCTTTGCAGCTCGTGACAACAGCCGGGATAAAAAACCTAACTTTGCGCTTCGTGGAGAAAACGTCTCGGACGTTAATTAACAGGTCTAGGACGGCGCTTCCTTGCAGGTAACATTGGGAATATTTAAAGATGTTGGACGGTATAAAAATCGAAGATCATCCGCTGCGGTCGGGACAAGCAACACTTGGAGTTATGCTCGGGACGGAGTGCCATCACCAGGCGGTGTGTGAGGGGTGCCAGCGGCCGATATCCGACCGCTTTCTGATGCGCGTCAACGAGTCTTCATGGCACGAGGAGTGTTTGCAATGCGCCGTGTGTCAACAACCGCTCACCACCAGCTGCTACTTCCGGGAGAGGAAACTTTACTGCAAATATGACTACCAACAGTTATTTGCGACCAAATGCAGCGGATGCCTGGAGAAAATTGCACCTACAGAATTTGTGATGCGGGCGCTGGAGTGTGTTTACCATCTCAACTGCTTCTGCTGCTGTGTATGTGACCGACAGCTGAGGAAAGGAGATGAGTTTGTGCTGAAGGACGGACAGTTGCTGTGCAAGAGCGATTATGAGAGGGAAAAAGACCTGCTCGGCTCTGTCAGCCCAGATGACTCAGATTCAGAGAAAAGCGAAGATGAGGAGCTGGATATCAAGCCGGAGAAAGGCTCGGGAGGCACCGGGAAGGGAGATGATGGGAAAGACCCTAGAAGACCCAAGAGACCACGTACCATCCTCACCACACAGCAGAGACGAGCCTTCAAGGCGTCGTTCGAGGTGTCTTCCAAACCCTGCCGGAAGGTAAGAGAGACACTGGCTGCAGAGACAGGTCTGAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAGATGAAGAAGTTGGCGCGGAGACAGCAGCAGCAACAGGAGCAGCAGAACTCCCAAAGGCTGGGCCAAGAGGTAATGTCCAATCGGATGGAGGGTATGATGAACTCCTACACACCATTGGCTCCAGCCCAGCAGCAAATGGTTGCACTGGAGAACGGCTACAGCACCGACCCCTTCCAGCAGGGCCTCACCCCTCCTCAGATGCCCGGTGACCACATGAACCCATATGGAAATGACTCGATATTCCACGACATTGACAGCGACACTTCTCTGACCAGCCTCAGTGACTGCTTTATGGCCTCGTCTGACGCGGGATCCATGCAGGCCCGAGTGGGAAACCCCATCGACCGACTCTACTCCATGCAGAGCTCCTATTTCGCCTCATGAAAGCACACTCGCTGCAGCTCACACCAGTCACTCGCCGCCTATCAAGGGAACACGCGCTCGCTCGACAAAAAAGACGAGACACCAGAAACAAGACAAGTGAACTTCCCTACCCTACAATGGACGTCCAGAAGCTGACATTTCTTCCTTTTCTAGTTACATGTAGATCGTTTGTACATGACTTTCTGAGAAGTAGCATTTCACTTAATCCTCATGGACTTGTGGAGAGGGAGAAAAAACACACTAAAAGGGTATCGGTGTACAGTTTGATGTAACTGAAGCATCAAGACTCGTGACTTTCCAGAAGATCAACACATAAAGCTCATAATGCATGAATCCATATCTTTGTGATTGTTacgtttaaaagaagaaaaaaatagattagaaaaaaaatcttgtgttgtTCAGATGTTGAAATGTGATGTTCGGACTCATAATTTGCTCTTTTCGTTATGTTCAGCATTGCATTTTTTTCCTCACTTTAATAGTTTAGCCCTTCTGAAAGACGATGTAGAAAAAGCTTAGAGGGGGAGATTATGTATAGTG
>TCONS_00071438
GAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAGATGAAGAAGTTGGCGCGGAGACAGCAGCAGCAACAGGAGCAGCAGAACTCCCAAAGGCTGGGCCAAGGTAAAATGTCCTGACATGAACCTTAAGGCAAACGTATCAGTCACAAATATGATTTGTCAGAGGTCAACAAGCataaaataacattgtttatttTCAATCTGCAGTCATTTTTCTCTGCATTTTCACAATGGGGTATGTGCATAccgacttttaatttcagtcagccagccccagggcttccagtTAATTGTCATCCAATACAAAATCACCACGTTTAAGatcagatttataaaaaaatacatagatcttcactgcctggctgatataagatataaagtgggtatcagactaAAGAAGAGGCACTgcattaagttttatttttccatgccatgtctttaaaatatattaattttaccccagtattttcaatagaatttCTGTGCTATCCTGCTGCTAATGACAACACCTGGGTTTAAACTCTTTGCACGCTTTAACAACCacatgaatgcttaagtctatttaactaattATATTTGAATTTCATTACAACGTCAATGCTGGAAAAAGCAACCATATGAAAtcgaaaatagtcacataaagctttcattgaaagttcatcattggctgaaaaacactagctgtac

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).

GO:

id name namespace
GO:0061386 closure of optic fissure biological_process
GO:0035775 pronephric glomerulus morphogenesis biological_process
GO:0048752 semicircular canal morphogenesis biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060117 auditory receptor cell development biological_process
GO:0021592 fourth ventricle development biological_process
GO:0030182 neuron differentiation biological_process
GO:0042472 inner ear morphogenesis biological_process
GO:0002072 optic cup morphogenesis involved in camera-type eye development biological_process
GO:0032474 otolith morphogenesis biological_process
GO:0072015 glomerular visceral epithelial cell development biological_process
GO:1905962 glutamatergic neuron differentiation 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:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050114-2 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).

Ensembl:

ensembl_id ENSDARG00000068365

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00071436 False 3812 mRNA 0.44 8 33258580 33381430
TCONS_00071437 False 1952 mRNA 0.49 9 33260675 33381913
TCONS_00071438 True 697 lncRNA 0.38 2 33277425 33278592

Neighbor

gene id symbol gene type direction distance location
XLOC_036570 zbtb34 coding downstream 103903 33132502 ~ 33154677 (-)
XLOC_036568 ralgps1 coding downstream 144378 32914626 ~ 33114202 (-)
XLOC_036569 CT573394.1 coding downstream 326821 32931643 ~ 32931759 (-)
XLOC_036567 NA coding downstream 351281 32903410 ~ 32907299 (-)
XLOC_036566 si:dkey-56i24.1 coding downstream 364377 32851241 ~ 32894203 (-)
XLOC_036572 NA coding upstream 849 33382762 ~ 33402110 (-)
XLOC_036573 mvb12bb coding upstream 38764 33420677 ~ 33568964 (-)
XLOC_036574 CR407561.2 coding upstream 211737 33593650 ~ 33615673 (-)
XLOC_036575 NA coding upstream 240491 33622404 ~ 33676878 (-)
XLOC_036576 FP101880.1 coding upstream 401525 33783438 ~ 33783554 (-)
XLOC_036564 NA non-coding downstream 464104 32784492 ~ 32794476 (-)
XLOC_036561 BX545917.1 non-coding downstream 784781 32472628 ~ 32473799 (-)
XLOC_036560 BX545917.3 non-coding downstream 794858 32460395 ~ 32463722 (-)
XLOC_036578 NA non-coding upstream 692029 34073942 ~ 34074602 (-)

Expression


Co-expression Network