XLOC_023306 (tgif1)


Basic Information

Item Value
gene id XLOC_023306
gene name tgif1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 9287409 ~ 9300160 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00046094
ATGTCCAAACACGTCTCCACAAACACATCCCGCGCGCCAGATCTTTCTCTACACACGTTACAGATTCAAATCGGTTTGTCTAAAAGCCCCTTTTCTGTCTCTTTTTACTCTTATTGTACGTCTGATGTCAGATTTTTCCTTCTTGCCCTCGGAGGGGGAGGATCTAACCGCGTTGAGTCACGCAGCTGTCAAAGATAGCTGTCACCCAGTTTCCACATCAAACACAGTGAATGAGACGCGCAGCCTGTCCCAGGTACCCGACAATGTGTTGCGTCTCCGACAAATGAAAAACGCGCTCCGCGGTGATTCCTCgacaaaaaagagaaatatttgcGCTCGATACTTCGTAACAATCTGGAATAATACAGTTGTGAGTGATTAAAGCGAGGAAGAATCGACCTCCTTGTTGCCAACGTGAAAAGGGGAATTTTGACGGACATGAAGACCAAAAAGGGTGTTTTGGCGATGTCAGGAAGCGAGACGGAGGATGAGGACAGTTTGGATGTGCCTCTTGACCTCTCTTCGAATGGAGGAGTGTCAGGGAAGAGGAAGAGGAGAGGAAACTTGCCCAAAGAGTCGGTACAAATACTCCGGGACTGGCTCTACCAACACAGATACAATGCCTATCCATCAGAGCAGGAAAAAGCCCTGCTGTCCAAGCAGACCCATCTATCCACACTACAGGTTTGCAACTGGTTTATAAATGCGCGGCGACGACTCCTTCCTGAGATGCTCCGGAAAGATGGCAAGGACCCCAACCAGTTCACCATCTCGCGGCGGGGCAGCAAGGGTGGCGAAATGCTCAGTGACAACTCCCAGTCCCCGAAACACGGTCTGCTCGCCAACGGAGAAGACCGCAACAGCTACGAGCCTGGCTCACCTCACCCGACCAGCAACACACCCACTTCCAACGGTTACCCCAAAAAGGCCCTGTCCCCTAAAACACCTCCCTCGCCCGGACCTGTCTTACCCAGACCCTCCGTCATCTGCCACACCACTATCACCACAGCCACGCAAGGCATCAACACAACAACGCGCCTCGGCGTCGAGGGAGCCACAGAGCTGCCACTCACAGATGCGGCCAGCCTATTCGGGTGTCGAGGGGAGGGTAACGTCAGCCCTCAGAGCGGCCTGTTCAACACCCCTCCGCCCACCCCACCCGACCTCACCCAGGACTTCAGCGGTTTCCAGCTGCTGGTTGACGTAGCGCTGAAGAGGGCTGCCGAAATGGAGCTGCAGGCCAAAAAGCTCCTcgcctgaagaaaaaaaaaacggatgGAGGAATTAAAGAGCTTCATCGATGTTTGTTTTTCGCCCCCCCCCCCAAATGTGAACTCCACTGGGAGTTCATAAAAAACTTGACTGAGCAACAAAGCAAACTAGCATGGCCTGATCATTTCTatttttggtaaatcaaattGATGAGGATTCCTTTATGTAAAGCATTTCAAGGTGCCTTGGCAGTTCTTTTTTTTGTATTccatttatatgtaaataaatatgtatctTCATTTTGTACACAGGGGACCAAAATCAAACACAGTAATACGACTTCCTTCTTTACGAGAAGACGAGCTTTTCTCCCATTCCTCATGAGTCTTTCTTTCTCGTTTTCAGAGATTCGGCTCTATGATTGTCAATTTATGCCTCGTTTTTAGAGAACACGTCTGATATTCTGCCTCGTTTTCTTTTGCACAATATGGCAGGTCATCTCAGTATCTTATCAACTCTAGCTTTCTCTCCAACAGACTCTAATCACTACTGCACCAGGTCATTCTGTGTCTCATAGATGTTCAGttcttttgtattttctttgttgTTGTAAAGTTTCAGATGCTGTTAGTACGTTTGTTTTCTTCATTACTCTCGAGGGATATTCAGATGTAGCAGAACTATAGTCTGAGATTTCCTCTGAATACTCAGTGTAGAAACGGCCAGTGAATGTGCCCACATACTTCCCTccccacccctacacacacatacatacacgcaaACAAATACACACCTTGGACAAGTGAGCTGGAAGAATAAAACACTACATGAATCGtattaagtttttttgttttgtttctttttttgctgtttattacgTTGAGACCACTTTCAGAGGATAAAATGAAAAGAATGGTTTTATGTCACCAAATATGTTGATTTCAAGGTTTTGGGACCTTAGACCAGTGCATTTACAGTAGCCAATGTGACATGATGCCCAATGATGTGACTTCTCCTCCTTACTGTGCAATGTATGTGGCAAATAGGGGTCACACGGTGTTTaaataaagttttgttttctACAAAATAA
>TCONS_00046095
TGTGTGTCACACAAGCCATGAAggttacaaattttatttttttattttttgcagggCTGGGTGAACCATCTTTCTTTAAAGAGTTCTTAGTTGTTTTAGGACCTTTTATTCTAAGAGACATGAAATCAATAAACATTGAAGATCTGAAATTGCTTTAAAGaatttattcaaaaatacatatttgcaaAAATAGATTTCAGGCACTTAAACATGAAAGAACCATCAGTTTAGTGTATAACACAACAGTGCAGATGATGTActtaaagaaaacacacacacacacacacacacacacacacacaatcattgtTAAGAACTGTTGGAAATGTTTGTGTAAGTGCGACATTCCATTCAAAAGTTCTGGACAACAgattacaaaacaatataaagaaaacaaatgtacATATAAGCCTTACAAATCTTGTAGACAACATGCAatcaagactaaaaaaaaaacattcgctCAAACTCAAATAGTCCTCATTTTACATATCACACCACAAATCATCTTGTGCACTGCACTTCAACATATTTCTGGAAAAATGAAGACACACAAGAACAGAAATATCATAAATTAAGGCAACATTTAATAATCACAGGAGTGAGTAAAGTGCAATCCTTTTGGAAACATCAGAATGAGTTACAGTATTCCAGGTACAATCTGTGAAGGACTCCATCTGTATCAGTGCAGGCCATTCTGTTCAATGTACATCCTGGAAAGGGACGCTGCCATGGATTTGGCCAACTCCTCATCCCTTTTGCGCTGTACCTGGGTGTGACGGCACCAGTCATCATACTCCGGGTTGGGCTGACAGCTGTCCAGCAGCACATCATAATGACCATTACTGAGCCAGCTCAACCATATGGCTGGTTTAGAGGAGTCCTCTTCACCCAAGTAGTGCACCATGGTCGATACTGTCGGGCTTTCCACGCTACCCCCAGTGGTCAAGTAGATATTCACATTCAACATCTGACTCATGGCTAACAGTTCAGGATAGCCGGCCCATGCACCATCCTGCGCCGCATTGATGAGAAACTCCCCAACATCTCCTTCGATAATGGGGTTGAACTCCTCCAGATGATCGGCAATGTGGTGCATGGTTTGCTCTCTCAGCTCCTTGTGCATTGACTGGTCCCCATAAGCCGCCTTGGAAACGGCCCGGTACAGGCAGTTCCCATCTGGGATGATGTGAAAGCGGTATTTCTGCCTGTCATGAAGGTGTTTTGGCGATGTCAGGAAGCGAGACGGAGGATGAGGACAGTTTGGATGTGCCTCTTGACCTCTCTTCGAATGGAGGAGTGTCAGGGAAGAGGAAGAGGAGAGGAAACTTGCCCAAAGAGTCGGTACAAATACTCCGGGACTGGCTCTACCAACACAGATACAATGCCTATCCATCAGAGCAGGAAAAAGCCCTGCTGTCCAAGCAGACCCATCTATCCACACTACAGGTTTGCAACTGGTTTATAAATGCGCGGCGACGACTCCTTCCTGAGATGCTCCGGAAAGATGGCAAGGACCCCAACCAGTTCACCATCTCGCGGCGGGGCAGCAAGGGTGGCGAAATGCTCAGTGACAACTCCCAGTCCCCGAAACACGGTCTGCTCGCCAACGGAGAAGACCGCAACAGCTACGAGCCTGGCTCACCTCACCCGACCAGCAACACACCCACTTCCAACGGTTACCCCAAAAAGGCCCTGTCCCCTAAAACACCTCCCTCGCCCGGACCTGTCTTACCCAGACCCTCCGTCATCTGCCACACCACTATCACCACAGCCACGCAAGGCATCAACACAACAACGCGCCTCGGCGTCGAGGGAGCCACAGAGCTGCCACTCACAGATGCGGCCAGCCTATTCGGGTGTCGAGGGGAGGGTAACGTCAGCCCTCAGAGCGGCCTGTTCAACACCCCTCCGCCCACCCCACCCGACCTCACCCAGGACTTCAGCGGTTTCCAGCTGCTGGTTGACGTAGCGCTGAAGAGGGCTGCCGAAATGGAGCTGCAGGCCAAAAAGCTCCTcgcctgaagaaaaaaaaaacggatgGAGGAATTAAAGAGCTTCATCGATGTTTGTTTTTCGCCCCCCCCCCCAAATGTGAACTCCACTGGGAGTTCATAAAAAACTTGACTGAGCAACAAAGCAAACTAGCATGGCCTGATCATTTCTatttttggtaaatcaaattGATGAGGATTCCTTTATGTAAAGCATTTCAAGGTGCCTTGGCAGTTCTTTTTTTTGTATTccatttatatgtaaataaatatgtatctTCATTTTGTACACAGGGGACCAAAATCAAACACAGTAATACGACTTCCTTCTTTACGAGAAGACGAGCTTTTCTCCCATTCCTCATGAGTCTTTCTTTCTCGTTTTCAGAGATTCGGCTCTATGATTGTCAATTTATGCCTCGTTTTTAGAGAACACGTCTGATATTCTGCCTCGTTTTCTTTTGCACAATATGGCAGGTCATCTCAGTATCTTATCAACTCTAGCTTTCTCTCCAACAGACTCTAATCACTACTGCACCAGGTCATTCTGTGTCTCATAGATGTTCAGttcttttgtattttctttgttgTTGTAAAGTTTCAGATGCTGTTAGTACGTTTGTTTTCTTCATTACTCTCGAGGGATATTCAGATGTAGCAGAACTATAGTCTGAGATTTCCTCTGAATACTCAGTGTAGAAACGGCCAGTGAATGTGCCCACATACTTCCCTccccacccctacacacacatacatacacgcaaACAAATACACACCTTGGACAAGTGAGCTGGAAGAATAAAACACTACATGAATCGtattaagtttttttgttttgtttctttttttgctgtttattacgTTGAGACCACTTTCAGAGGATAAAATGAAAAGAATGGTTTTATGTCACCAAATATGTTGATTTCAAGGTTTTGGGACCTTAGACCAGTGCATTTACAGTAGCCAATGTGACATGATGCCCAATGATGTGACTTCTCCTCCTTACTGTGCAATGTATGTGGCAAATAGGGGTCACACGGTGTTTaaataaagttttgttttctACAAAATAA
>TCONS_00046096
ACACACTGATTCCCAGCTTACTCATTCCCTGAAACACTTATTGCTGGTTACAAACACATTGCTCATACATCAGTCTGACTTTACACTTTTCCTCATTCTGTACACACATATGCACGTGCAGAATAAACAATACGTTTTAGCTCTGGTCTCTTATGAATGCAGGTGTTTTGGCGATGTCAGGAAGCGAGACGGAGGATGAGGACAGTTTGGATGTGCCTCTTGACCTCTCTTCGAATGGAGGAGTGTCAGGGAAGAGGAAGAGGAGAGGAAACTTGCCCAAAGAGTCGGTACAAATACTCCGGGACTGGCTCTACCAACACAGATACAATGCCTATCCATCAGAGCAGGAAAAAGCCCTGCTGTCCAAGCAGACCCATCTATCCACACTACAGGTTTGCAACTGGTTTATAAATGCGCGGCGACGACTCCTTCCTGAGATGCTCCGGAAAGATGGCAAGGACCCCAACCAGTTCACCATCTCGCGGCGGGGCAGCAAGGGTGGCGAAATGCTCAGTGACAACTCCCAGTCCCCGAAACACGGTCTGCTCGCCAACGGAGAAGACCGCAACAGCTACGAGCCTGGCTCACCTCACCCGACCAGCAACACACCCACTTCCAACGGTTACCCCAAAAAGGCCCTGTCCCCTAAAACACCTCCCTCGCCCGGACCTGTCTTACCCAGACCCTCCGTCATCTGCCACACCACTATCACCACAGCCACGCAAGGCAT

Function

symbol description
tgif1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including nervous system development; regulation of signal transduction; and sensory epithelium regeneration. Predicted to be located in nucleus. Is expressed in several structures, including forebrain neural plate; neural tube; presumptive diencephalon; retinal neural layer; and spinal cord neural keel. Used to study holoprosencephaly. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 4. Orthologous to human TGIF1 (TGFB induced factor homeobox 1).

GO:

id name namespace
GO:0021797 forebrain anterior/posterior pattern specification biological_process
GO:0046530 photoreceptor cell differentiation biological_process
GO:0072091 regulation of stem cell proliferation biological_process
GO:0017015 regulation of transforming growth factor beta receptor signaling pathway biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0048854 brain morphogenesis biological_process
GO:0070654 sensory epithelium regeneration biological_process
GO:0048385 regulation of retinoic acid receptor signaling pathway biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG:

id description
ko04350 TGF-beta signaling pathway
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-030131-475 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including nervous system development; regulation of signal transduction; and sensory epithelium regeneration. Predicted to be located in nucleus. Is expressed in several structures, including forebrain neural plate; neural tube; presumptive diencephalon; retinal neural layer; and spinal cord neural keel. Used to study holoprosencephaly. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 4. Orthologous to human TGIF1 (TGFB induced factor homeobox 1).

Ensembl:

ensembl_id ENSDARG00000059337

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00046094 False 2302 mRNA 0.47 3 9287409 9294134
TCONS_00046095 False 3067 mRNA 0.44 3 9287409 9300160
TCONS_00046096 True 730 mRNA 0.52 2 9288689 9291857

Neighbor

gene id symbol gene type direction distance location
XLOC_023304 NA coding downstream 767 9252734 ~ 9286642 (-)
XLOC_023305 NA coding downstream 6392 9275095 ~ 9281017 (-)
XLOC_023303 CR318624.1 coding downstream 161384 9104613 ~ 9126025 (-)
XLOC_023302 mppe1 coding downstream 285309 8979452 ~ 9002100 (-)
XLOC_023301 BX546453.1 coding downstream 297218 8900916 ~ 8990191 (-)
XLOC_023307 NA coding upstream 207514 9507674 ~ 9612356 (-)
XLOC_023308 uba5 coding upstream 373067 9673227 ~ 9689930 (-)
XLOC_023309 BX649325.1 coding upstream 412335 9712495 ~ 9712610 (-)
XLOC_023310 NA coding upstream 570387 9870547 ~ 9874691 (-)
XLOC_023311 vps41 coding upstream 595691 9895851 ~ 9960316 (-)
XLOC_023665 dre-mir-735 misc upstream 28877801 38177961 ~ 38178027 (-)
XLOC_023292 CR376854.1 non-coding downstream 1319809 7967484 ~ 7967600 (-)
XLOC_023283 BX890551.1 non-coding downstream 2515032 6771308 ~ 6772377 (-)
XLOC_023317 CR391965.1 non-coding upstream 955754 10255914 ~ 10256030 (-)
XLOC_023318 NA non-coding upstream 969696 10269856 ~ 10275658 (-)

Expression


Co-expression Network