XLOC_000627 (lef1)


Basic Information

Item Value
gene id XLOC_000627
gene name lef1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 49814461 ~ 49905357 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00001069
GTAGTCAGTCAGAGATCAGGGGGAGGAGTACAGCACTACACTCTCTCCAGCCCAACATTACTCTCAGTCTCTGCTGAGCTCATTTCTGAAGAGGGACACCTTTTTTACCCAACAAACCAAACGGGAATGACACACACCATCTGAACTccaacatttctttttttgttgttgttgcttttattttgaaacaagtgaaacTGTCCTTTTCTGAACTTTAAGTTCCAACTTTTTCCTTCCACCAAAGGATTCGTATTTTAACTTTTTCCCCAAACCCGCTATTTTTCTTCCTCTGGATTCCCGAGAGTTTTTCCACcggacgcgcgcgctcttgttaCCGTAAACCAAACACACTCACGCGCGCGTGTTCGGAGTGCGCGAGCTGACCAGAAACAAAACAACTATACGGGGGGTTTAATTTCAATTGCACGCGTTTGCGTCCCTGGCGTTTGTAGGGTGAGGAGGACTTTCATTCACCCGAGAAATGCCGCAGTTGTCAGGTGGAGGAGGCGGCGGGGACCCGGAGCTCTGCGCCACCGATGAAATGATCCCGTTCAAAGACGAGGGAGACCCGCACAAGGAGCAAATCTTCGCGGAGATCAGCCACTCCGAGGAGGAGGGAGACTTAGCGGAGATCAAATCATCTCTGGTCAACGAGACAGAAATCAGTCCCAACAGTAACAGTCACGACGCAGCTAGACAGTCCCAAATAACACCAGACTCTTACCATGAGAAGCACAGGGACCATCCGGATGATGGCAAACTCCAAGACTTGTACAGCAAAGGCCACCCGTACCCGAGTTATCCCGGATACATCATGATGACCAATATGAACAATGAACCCTACATGAACAACGGCTCTCTCTCGCCTCCCATTCCCAGAACGTCGAATAAGGTGCCGGTGGTCCAGCCGTCCCATGCCGTTCACCCACTCACCCCTCTGATCACATACAGTGACGAGCACTTCGCCCCCGGCCCACATTCGGGACACCACCCACAGGATGTCAACCCCAAGCAAGCAGGTATGCCCAGGCATCATCCTGGACCAGACATTCCCAATTTCTATCCCCTTTCCCCGGGGGGAGTTGGACAGATGACCCCTCCTCTGGGTTGGTTCTCACATCACATGGTACCAGGCCCTCCTGGACCCCACGCCACAGGAATCCCCCATCCAGCCATTGTCAACCCACAGGTGAAACAGGAGCACGACACAGACCTGATGCACATGAAACCTCAGCACGAGCAGAGAAAGGAGCAGGAGCCCAAAAGACCTCACATCAAGAAACCTCTAAACGCTTTCATGCTGTATATGAAAGAGATGCGCGCCAATGTGGTGGCCGAATGCACGCTGAAGGAGAGCGCCGCTATCAATCAGATCCTCGGCCGGAGGTGGCATGCTTTATCTCGGGAAGAGCAAGCTAAGTATTACGAATTAGCCCGCAAGGAACGGCAGCTCCATATGCAGCTTTACCCAGGATGGTCTGCCAGAGACAATTATggaaagaaaaaaaagcggAAGAGGGAAAAGATCCAGGAACCTGCTTCAGGTACAGGCCAGAGAATGAAAACGGCGTACATCTGAACAATGGAGGAAAGCGGACGTCTTTTTCCTCTTGCAAAGCAAAGACAGCAGCTACAGGCCCCCTTTTAGAGATGGAAGCCTGCTAGACTTCTCAACCTTTCACCCCCCTCATCACCTCTCGACCCCAGTGGGATTCACCGAGGGTCCCGGTCCTCGAATCTGCTCCTCGGCTGCAGGCGCTGCTGTAGAGACATTGAACTGAGAAACAGACAATCACTAACGCAGACCCGTGAACACCTTCCTTTCGTTGTCTTTAATTCACTCCCGAAGCCGAAGGCGTTGCACTGATTATGTTCCTCGACCGTTTGTAAAGCGCACATATGGCcacatgtaaacaaacacacacacacacacacgttcctaCACCTGTCCCTAAGTTATTCTAAGTTATTTGGCACCTGTGTGTTCACTATGTCCACTCGCTCACTTGCTTTCGCGCCCTTAAAATGTAGCATCGCAGGGGCTGACGCAGTTTTAGGGATCACACGTTTCCATTTTCTTCACAGACATTGGTGTAACAAAAAAAGGATCAATGTTTTTGATTTCTCCTCGACATCTTGGGTTCATGTTTATTTTGAATGcttttcgttgttgttgttattattattctttattttcatttctcggtgtatattttattgattttcttttttatcattattttttatatatataaatatatatataatggaatATGAAAATAAGCTTGGAGACAGGAAAGCCATTTTTCTTGTTGAAGCGTCTCGCAGAAATAACGTTCTTTTTGATAACTATTTGTAAACGGATATCGACTTCTCAGTCTCGCGCAGGTGTAAAATAATGCTCaatgtgtactttttaaaaagagaTGTCTGGATGTCACTTTTCCTCTGTATTTTTGCAGGCAACATTAGGACAAAGGTGAAAGAGTAGGTACCCAGAGGCCTATATTTTATTGATCTAAATTGACAAATGAAGcagatatatatctatatatatttaccCCAGCACTTGGCAGTCTTTCTTTAATGGCAAATGTACCtctgtcctctctctctctctctctctggtagGTAATAGAGTGGTCTTTTACCATGTTTATTCCATGCAAACATTTCCAcattttatcttttttaattGTTCTCTTTTAGCATTTTcagatgatgttttttttttttttttttttttttacattcattgtCATATTTTGAATCGTTAACTTGGTGTAGCATTTTGCTTCCAAGTGGTCACATTCGAACTGTTTCAACGTCTTTTTTATGGAAATAAATAGGCATCTTTGACTGAAAA
>TCONS_00001070
ATGCCGCAGTTGTCAGGTGGAGGAGGCGGCGGGGACCCGGAGCTCTGCGCCACCGATGAAATGATCCCGTTCAAAGACGAGGGAGACCCGCACAAGGAGCAAATCTTCGCGGAGATCAGCCACTCCGAGGAGGAGGGAGACTTAGCGGAGATCAAATCATCTCTGGTCAACGAGACAGAAATCAGTCCCAACAGTAACAGTCACGACGCAGCTAGACAGTCCCAAATAACACCAGACTCTTACCATGAGAAGCACAGGGACCATCCGGATGATGGCAAACTCCAAGACTTGTACAGCAAAGGCCACCCGTACCCGAGTTATCCCGGATACATCATGATGACCAATATGAACAATGAACCCTACATGAACAACGGCTCTCTCTCGCCTCCCATTCCCAGAACGTCGAATAAGGTGCCGGTGGTCCAGCCGTCCCATGCCGTTCACCCACTCACCCCTCTGATCACATACAGTGACGAGCACTTCGCCCCCGGCCCACATTCGGGACACCACCCACAGGATGTCAACCCCAAGCAAGGTATGCCCAGGCATCATCCTGGACCAGACATTCCCAATTTCTATCCCCTTTCCCCGGGGGGAGTTGGACAGATGACCCCTCCTCTGGGTTGGTTCTCACATCACATGGTACCAGGCCCTCCTGGACCCCACGCCACAGGAATCCCCCATCCAGCCATTGTCAACCCACAGGTGAAACAGGAGCACGACACAGACCTGATGCACATGAAACCTCAGCACGAGCAGAGAAAGGAGCAGGAGCCCAAAAGACCTCACATCAAGAAACCTCTAAACGCTTTCATGCTGTATATGAAAGAGATGCGCGCCAATGTGGTGGCCGAATGCACGCTGAAGGAGAGCGCCGCTATCAATCAGATCCTCGGCCGGAGGTGGCATGCTTTATCTCGGGAAGAGCAAGCTAAGTATTACGAATTAGCCCGCAAGGAACGGCAGCTCCATATGCAGCTTTACCCAGGATGGTCTGCCAGAGACAATTATggaaagaaaaaaaagcggAAGAGGGAAAAGATCCAGGAACCTGCTTCAGGTACAGGCCAGAGAATGAAAACGGCGTACATCTGAACAATGGAGGAAAGCGGACGTCTTTTTCCTCTTGCAAAGCAAAGACAGCAGCTACAGGCCCCCTTTTAGAGATGGAAGCCTGCTAGACTTCTCAACCTTTCACCCCCCTCATCACCTCTCGACCCCAGTGGGATTCACCGAGGGTCCCGGTCCTCGAATCTGCTCCTCGGCTGCAGGCGCTGCTGTAGAGACATTGAACTGAGAAACAGACAATCACTAACGCAGACCCGTGAACACCTTCCTTTCGTTGTCTTTAATTCACTCCCGAAGCCGAAGGCGTTGCACTGATTATGTTCCTCGACCGTTTGTAAAGCGCACATATGGCcacatgtaaacaaacacacacacacacacacgttcctaCACCTGTCCCTAAGTTATTCTAAGTTATTTGGCACCTGTGTGTTCACTATGTCCACTCGCTCACTTGCTTTCGCGCCCTTAAAATGTAGCATCGCAGGGGCTGACGCAGTTTTAGGGATCACACGTTTCCATTTTCTTCACAGACATTGGTGTAACAAAAAAAGGATCAATGTTTTTGATTTCTCCTCGACATCTTGGGTTCATGTTTATTTTGAATGcttttcgttgttgttgttattattattctttattttcatttctcggtgtatattttattgattttcttttttatcattattttttatatatataaatatatatataatggaatATGAAAATAAGCTTGGAGACAGGAAAGCCATTTTTCTTGTTGAAGCGTCTCGCAGAAATAACGTTCTTTTTGATAACTATTTGTAAACGGATATCGACTTCTCAGTCTCGCGCAGGTGTAAAATAATGCTCaatgtgtactttttaaaaagagaTGTCTGGATGTCACTTTTCCTCTGTATTTTTGCAGGCAACATTAGGACAAAGGTGAAAGAGTAGGTACCCAGAGGCCTATATTTTATTGATCTAAATTGACAAATGAAGcagatatatatctatatatatttaccCCAGCACTTGGCAGTCTTTCTTTAATGGCAAATGTACCtctgtcctctctctctctctctctctggtagGTAATAGAGTGGTCTTTTACCATGTTTATTCCATGCAAACATTTCCAcattttatcttttttaattGTTCTCTTTTAGCATTTTcagatgatgttttttttttttttttttttttttacattcattgtCATATTTTGAATCGTTAACTTGGTGTAGCATTTTGCTTCCAAGTGGTCACATTCGAACTGTTTCAACGTCTTTTTTATGGAAATAAATAGGCATCTTTGACTGAAAATGACTGCTGTGTGATCGTTGTTTTTACTATATAttgaaatacactcaccggccactttataaggtacacctgtttaactgctcgttattgcaaatttctaatcagccaatcagatggcagcacctcaatgcatttaggcatgtagacatggtcaagacgatctgctgcagatctAACCAAGGATCAGAATGGGAAggaaggtaatttaagtgactttggacatggcatggttgttggtgccagacaggctggtctgagtatttcagaaactgctgatctactgggattttcacgcacaaccatctctgggatttacagaaaatggtctgaaaaagagaaaatatccagtaagcggcttTTCTGTGTGCACAAATGCAAGGTCACAGGAAAATGGCCAGATTTccagcttatagaaaggcaacagtaaccactcgttacaatcgagatctgcagaagagcatctctgaacacacaacacatccaaccttgaggcagatgggctacagcagcagaagaccacactgggtgccactcctgtcagctaagaacacaAAACTGAAACTACAACTCACactggctcaccaaaattggacaaagaTGAtaggagaaacgttgcctggtctgatgagtctcgatttctgctgcgacattcggatggtagggtcagaatttggcatcaacaacatgaaagcatggatccatcctgccttgtatcaatggttcagactggtggtggtgtggaggatattttcttgacacactttgggcccattagtaccaattgagcattgtgtcaatgccacagcctacctgagtaatgttgctggccgtgtccatccctttatgacgacagtgtacccatcttctgatggctacttccagcaggataacacaccatgtcataaagcgtgaatcatctcagactgctttcttgaacatgacaatgggttcactgtactcaaatggcctccacagtcaccatatgtcaatccaatagagcacctttgggatgtggtggaatgggagattcacatactggatgtgcagccaacaaatctgcagcaactgtgtgatgctgtcatgtcaatatggagcaaaatctctgaggaatatttccagtaccttgttgaatctatgccacaaaggattatggctgttctgaaggcaaatgtgggtccaacctggtactagtaaggtgtacctaataaagtggccggtgagtgcttGTCAAAATGAAGAAAGCCTCATTTTAATACACATCTGAATAACCATTTAGGCCTAAGTATTTGATAATAGGTGGATCATTTGCAGTGTTGCTAAAAATATTAAACAGCCATTCATTAGTCAAATGCTCATATAATGTATGATTTTAATTGGTGAGAATGCAGTTGAATGATGACGGCCTACAGAAGTGTATATTGTAGACTATTTTCAGTATCAGCAAAGCTAAGAGTTGCTGTAGATGTTGCTAGTGCTGCACTGCCACCTCATGAATAAAATTCCAGCATTGTTTGTTGATTTCTGAGGAGTttttaaaccatttgaaatttaTAGTGAATTTATAATACAAGTTTAATTGTAAACACCAGTGCAGTGGTTCACTAAGAAATACAGTTGTTAGTTATAAAAAAAGTTTGTCATTTTAGCCGATAAGATTCATATTTTGAAACGGTCTTTTATCTTGTCGTGATCCATTTCTATCAGTTTGTCTCTCTTTTTATGGTTTAATAATTAAGGGTTTATTTGTTACAACAGATGTGTAGCAATACGATTTAAAGACAGGAAGGCCTCAATGTAAATGATATTGCGCCATCTACTggtaaaagattaaataaaaagatgCTATATAGTTGTTACTACACTATTCTTG
>TCONS_00001071
GGAGCACGACACAGACCTGATGCACATGAAACCTCAGCACGAGCAGAGAAAGGAGCAGGAGCCCAAAAGACCTCACATCAAGAAACCTCTAAACGCTTTCATGCTGTATATGAAAGAGATGCGCGCCAATGTGGTGGCCGAATGCACGCTGAAGGAGAGCGCCGCTATCAATCAGATCCTCGGCCGGAGGTGGCATGCTTTATCTCGGGAAGAGCAAGCTAAGTATTACGAATTAGCCCGCAAGGAACGGCAGCTCCATATGCAGCTTTACCCAGGATGGTCTGCCAGAGACAATTATggaaagaaaaaaaagcggAAGAGGGAAAAGATCCAGGAACCTGCTTCAGatgGAAATGGCTTTTTCTTTTATGGAACACAAAAGGTACAGGCCAGAGAATGAAAACGGCGTACATCTGAACAATGGTAAGAG

Function

symbol description
lef1 Enables sequence-specific DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including animal organ development; fin development; and fin regeneration. Predicted to be located in nucleus. Predicted to be part of beta-catenin-TCF complex. Is expressed in several structures, including midbrain hindbrain boundary neural rod; nervous system; neural crest; pleuroperitoneal region; and trunk. Used to study anxiety disorder. Human ortholog(s) of this gene implicated in ovarian cancer. Orthologous to human LEF1 (lymphoid enhancer binding factor 1).

GO:

id name namespace
GO:0060070 canonical Wnt signaling pathway biological_process
GO:0022407 regulation of cell-cell adhesion biological_process
GO:0048747 muscle fiber development biological_process
GO:0010628 positive regulation of gene expression biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0001755 neural crest cell migration biological_process
GO:0001756 somitogenesis biological_process
GO:0021854 hypothalamus development biological_process
GO:0021879 forebrain neuron differentiation biological_process
GO:1900052 regulation of retinoic acid biosynthetic process biological_process
GO:0031101 fin regeneration biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0050769 positive regulation of neurogenesis biological_process
GO:0048916 posterior lateral line development biological_process
GO:0048919 posterior lateral line neuromast development biological_process
GO:0048922 posterior lateral line neuromast deposition biological_process
GO:0060784 regulation of cell proliferation involved in tissue homeostasis biological_process
GO:0021979 hypothalamus cell differentiation biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0033333 fin development biological_process
GO:0033334 fin morphogenesis biological_process
GO:0033336 caudal fin development biological_process
GO:0033339 pectoral fin development biological_process
GO:0022008 neurogenesis biological_process
GO:0016055 Wnt signaling pathway biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific molecular_function
GO:0070016 armadillo repeat domain binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0008013 beta-catenin binding molecular_function
GO:0008301 DNA binding, bending molecular_function
GO:0045295 gamma-catenin binding molecular_function
GO:0030331 estrogen receptor binding molecular_function

KEGG:

id description
ko04310 Wnt signaling pathway
ko04390 Hippo signaling pathway
ko04520 Adherens junction
ko04916 Melanogenesis
ko05200 Pathways in cancer
ko05210 Colorectal cancer
ko05225 Hepatocellular carcinoma
ko05226 Gastric cancer
ko05216 Thyroid cancer
ko05221 Acute myeloid leukemia
ko05217 Basal cell carcinoma
ko05215 Prostate cancer
ko05213 Endometrial cancer
ko05224 Breast cancer
ko05167 Kaposi sarcoma-associated herpesvirus infection
ko05132 Salmonella infection
ko05412 Arrhythmogenic right ventricular cardiomyopathy
ko04934 Cushing syndrome
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-990714-26 Enables sequence-specific DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including animal organ development; fin development; and fin regeneration. Predicted to be located in nucleus. Predicted to be part of beta-catenin-TCF complex. Is expressed in several structures, including midbrain hindbrain boundary neural rod; nervous system; neural crest; pleuroperitoneal region; and trunk. Used to study anxiety disorder. Human ortholog(s) of this gene implicated in ovarian cancer. Orthologous to human LEF1 (lymphoid enhancer binding factor 1).

Ensembl:

ensembl_id ENSDARG00000031894

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00001069 False 2866 mRNA 0.46 11 49814461 49903487
TCONS_00001070 False 4252 mRNA 0.43 11 49814942 49905357
TCONS_00001071 True 430 mRNA 0.49 6 49878000 49886512

Neighbor

gene id symbol gene type direction distance location
XLOC_000626 NA coding upstream 39521 49699382 ~ 49774940 (+)
XLOC_000625 si:ch211-149l1.2 coding upstream 116351 49682312 ~ 49698110 (+)
XLOC_000624 tsga10 coding upstream 140455 49651012 ~ 49674006 (+)
XLOC_000622 col17a1a coding upstream 208607 49568335 ~ 49605854 (+)
XLOC_000623 BX321880.1 coding upstream 223638 49590701 ~ 49590823 (+)
XLOC_000628 NA coding downstream 15433 49920790 ~ 49922873 (+)
XLOC_000629 gstcd coding downstream 46350 49951707 ~ 50065603 (+)
XLOC_000630 npnta coding downstream 180083 50085440 ~ 50188006 (+)
XLOC_000631 aimp1a coding downstream 388581 50293938 ~ 50319654 (+)
XLOC_000632 NA coding downstream 483962 50389319 ~ 50392789 (+)
XLOC_000616 NA non-coding upstream 561807 49244352 ~ 49252654 (+)
XLOC_000615 NA non-coding upstream 662454 49134464 ~ 49152007 (+)
XLOC_000614 CR788248.1 non-coding upstream 887412 48923328 ~ 48927049 (+)
XLOC_000633 NA non-coding downstream 622777 50528134 ~ 50531694 (+)
XLOC_000637 NA non-coding downstream 827799 50733156 ~ 50808448 (+)
XLOC_000638 BX855617.1 non-coding downstream 949007 50854364 ~ 50854478 (+)

Expression


Co-expression Network