XLOC_022103 (hmga1a)


Basic Information

Item Value
gene id XLOC_022103
gene name hmga1a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 3751451 ~ 3759692 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00043665
CATTTCAGTCTATTTCCCGTGTGGAAGACCCCATGAAATGCCCCTGAAACTCCCGACGGCGATTGTTGTCTTTCATTCATTCGCAGCTCGCGGACCTCGCTGGTGTGCACACTTTGGACTTTGTCCCGACCGCTCCTTTAAAAGGTGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGACACAAAGCGATTTGCAAAATACTgaagtttcttttgtttttctcgTCTCACAAACAGTTTCAGGCCTTGGGGATTCACGTTTATTTTTGCAAGTCTAAATCTAAAATTGCGGTAGGTTGTGTGAAATTCATGTCGTCGTGTACTGGACAAAGGTGAATTGACctacttgtttgtttttacttgggttgtgtgtgcgcgtgcgtgtgtgtgtgtgtggtaactCGATGTCTCCAGTtatacctttattttattttttagcttctgtGATTTTCAAGCTAGAACTAAACCTTGAGTGAGCATAATCTAGAGGACTTTTAACTTGTAATCAACATATCATCAAATGCTTTTTGTCGTGGATATCTTCCTCCTTCATAACAGCCGATTCTCCACCATCatgatttatatacatataaataaatcccCGTTAAATTTGTTAGCACGCCTCGTTGTGCGTTACGCAGAGGAACGTCTTGACTACGTTTCACGTTTTATTTGGTCGTGGAGGACGATGATTGCTTTTAATCGTGACCCGTTTTCCCCATCACCATCCTATACGACATCGTCCTCGAAACAACAACAAACAGTAAACTGCAGATTTGGACGACAGCAGTGCTTTAAATTTTATCGGCCCCAAACCCGTTGACCTCGCATGTGACTGTAAATGTGTTATATTTTAATAGTAGTACAGATCGATTAGAGCATTCCATTTAGCTGATGAAACGTCCCGGCCGTGTCAGTACTTCAGTCCACTCGGACATCTTtggcttcattttgtttttgttgtttttgacgTGTTGAATTCCATGTCAGGGAACGCTGATCGGTCCAGTGACTGGGTCTCCTCTCAGAACTTAATGCTGCTACAAACATGGTTAACTAAAAACCCGGAATACTGCAACCCGGTCAGTTCTACTCTGGACTTGACCGTCACTTTCATACCTCACTTTACAACAGCCTATGACGGATTTCTCTCCTCTGTTAATTTTCCTGACGCCGTTCAACTGGTCTCAGTGCAGCGTTTGCCGAGAGCGCTCGTTTGATCCTCCTCTAGTGTGGGGTTATTGTTGCTCTGTTTTTGTTTCAAACTGGTTTTGCTTTACAGCGGTGTGCATCATTTAATTCCTGTAGAATCATCTGGAGACGCCAACAGCGGGATGCATTGAGTCAGAGAGATGCAAAACGTGTTCACAGACTGTGGTAGAGATCTAGGTTTTATTTTCTTCTGTACGTATTTGTTTGGTGCACTGAATTGACTTATTTTTGCTTTCTTATCCTGAATAAAATGACTTTAGTGTGGCACCTGAAGCCTAGGGTTTGTTTATTTCTCCTGTCTCCGATTTAAACTTCCTCATCCTGCTAGCCGCTTTAGCTCCGAGCCCTTGTTTTGGTAGATCATGATGGTACTATATACGGCTGTTTGACGCAGTGGTTTTTAACATGCCCTTCATTACTGATGTCTTGTTTTTATGTGCCCGTGCACACAACTGGTTTGGGATCAGTCTTTTCAATGTATACACTCTGCATTTTCTATTGTGGACTGCAGGAATTTATATTCAAAAATGGTAATAAAGTTAAGAATTCGtacatgtgt
>TCONS_00043666
AAACAACTAAAGAAGGAAACAAACAATGCTTTTAATAGTCTACTCTTTCAAAGAGAAGTGGGGGAGGGCCGTTAACGACATTATACACAAAAGCACCCGAATCGATTGGCTGAATACACGCAACAGTTCCGCTGATTGGCTGCTGACAATTCAAACGCACGTCCTCCGCGAAGGCCCCGCCCATTTCAGTCTATTTCCCGTGTGGAAGACCCCATGAAATGCCCCTGAAACTCCCGACGGCGATTGTTGTCTTTCATTCATTCGCAGCTCGCGGACCTCGCTGGTGTGCACACTTTGGACTTTGTCCCGACCGCTCCTTTAAAAGGTGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGCAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGACACAAAGCGATTTGCAAAATACTgaagtttcttttgtttttctcgTCTCACAAACAGTTTCAGGCCTTGGGGATTCACGTTTATTTTTGCAAGTCTAAATCTAAAATTGCGGTAGGTTGTGTGAAATTCATGTCGTCGTGTACTGGACAAAGGTGAATTGACctacttgtttgtttttacttgggttgtgtgtgcgcgtgcgtgtgtgtgtgtgtggtaactCGATGTCTCCAGTtatacctttattttattttttagcttctgtGATTTTCAAGCTAGAACTAAACCTTGAGTGAGCATAATCTAGAGGACTTTTAACTTGTAATCAACATATCATCAAATGCTTTTTGTCGTGGATATCTTCCTCCTTCATAACAGCCGATTCTCCACCATCatgatttatatacatataaataaatcccCGTTAAATTTGTTAGCACGCCTCGTTGTGCGTTACGCAGAGGAACGTCTTGACTACGTTTCACGTTTTATTTGGTCGTGGAGGACGATGATTGCTTTTAATCGTGACCCGTTTTCCCCATCACCATCCTATACGACATCGTCCTCGAAACAACAACAAACAGTAAACTGCAGATTTGGACGACAGCAGTGCTTTAAATTTTATCGGCCCCAAACCCGTTGACCTCGCATGTGACTGTAAATGTGTTATATTTTAATAGTAGTACAGATCGATTAGAGCATTCCATTTAGCTGATGAAACGTCCCGGCCGTGTCAGTACTTCAGTCCACTCGGACATCTTtggcttcattttgtttttgttgtttttgacgTGTTGAATTCCATGTCAGGGAACGCTGATCGGTCCAGTGACTGGGTCTCCTCTCAGAACTTAATGCTGCTACAAACATGGTTAACTAAAAACCCGGAATACTGCAACCCGGTCAGTTCTACTCTGGACTTGACCGTCACTTTCATACCTCACTTTACAACAGCCTATGACGGATTTCTCTCCTCTGTTAATTTTCCTGACGCCGTTCAACTGGTCTCAGTGCAGCGTTTGCCGAGAGCGCTCGTTTGATCCTCCTCTAGTGTGGGGTTATTGTTGCTCTGTTTTTGTTTCAAACTGGTTTTGCTTTACAGCGGTGTGCATCATTTAATTCCTGTAGAATCATCTGGAGACGCCAACAGCGGGATGCATTGAGTCAGAGAGATGCAAAACGTGTTCACAGACTGTGGTAGAGATCTAGGTTTTATTTTCTTCTGTACGTATTTGTTTGGTGCACTGAATTGACTTATTTTTGCTTTCTTATCCTGAATAAAATGACTTTAGTGTGGCACCTGAAGCCTAGGGTTTGTTTATTTCTCCTGTCTCCGATTTAAACTTCCTCATCCTGCTAGCCGCTTTAGCTCCGAGCCCTTGTTTTGGTAGATCATGATGGTACTATATACGGCTGTTTGACGCAGTGGTTTTTAACATGCCCTTCATTACTGATGTCTTGTTTTTATGTGCCCGTGCACACAACTGGTTTGGGATCAGTCTTTTCAATGTATACACTCTGCATTTTCTATTGTGGACTGCAGGAATTTATATTCAAAAATGGTAATAAAGTTAAGAATTCGta
>TCONS_00043667
GCCTTTAGCTTTCTGTTTTAAAGATCCGTCGCAGTACAGCGAACTTCATACGAATTTCACCGCTGCAGTTTTAAGTGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGCAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGACACAAAGCGATTTGCAAAATACTgaagtttcttttgtttttctcgTCTCACAAACAGTTTCAGGCCTTGGGGATTCACGTTTATTTTTGCAAGTCTAAATCTAAAATTGCGGTAGGTTGTGTGAAATTCATGTCGTCGTGTACTGGACAAAGGTGAATTGACctacttgtttgtttttacttgggttgtgtgtgcgcgtgcgtgtg
>TCONS_00043668
GACGGCGATTGTTGTCTTTCATTCATTCGCAGCTCGCGGACCTCGCTGGTGTGCACACTTTGGACTTTGTCCCGACCGCTCCTTTAAAAGGCAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGACACAAAGCGATTTGCAAAATACTgaagtttcttttgtttttctcgTCTCACAAACAGTTTCAGGCCTTGGGGATTCACGTTTATTTTTGCAAGTCTAAATCTAAAATTGCGGTAGGTTGTGTGAAATTCATGTCGTCGTGTACTGGACAAAGGTGAATTGACctacttgtttgtttttac
>TCONS_00043669
CTcgttttaaagctattttagcGATTTTATTTCTACACGAACGCTTGAAGGAGAAAACGGAAACTGCATGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGCAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGACACAAAGCGATTTGCAAAATACTgaagtttcttttgtttttctcgTCTCACAAACAGTTTCAG
>TCONS_00043670
AACAAACGGGAAGCCGGTGGTTCCGCACTCCCCTCCATTACGCTCACTGTAAATGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGACCAAAGGGCAGCAAAAACAAGCCGAGCTCTACTGTGTCTCGGGGCAAAAAAGCAGCAGCGGCTTCGGCACCTGCAGGGACTAAACGCCGAGGACGACCCAAGAAAGCAGAGAAGGAGGAGCAGCCATCCAAGTCCTccgaggaggaagaagaggaggaagaggaacaGTAACTAGCGACTCGTGCTACCTCACAATCCAACGTTATTTCTTCCTGTTGACCAGAGCTGGACTGACCCTTTCCCCCACCCTGATTTCTCCCCTCTACCCTCTCTCTTTTCCCGTACACTAGTGCCACCCTCACCCTCCAATTCACCTTTATGCTCTAGTGCCCCCTAGTGTCAGGGAGGCTGGCATGTCCATGCGGCTTCTGTGTAACACCactggaaaaaacaaaaaaaggactCAAAATATACTGTATGTCCATTCATGGATGCATGCACacatgtatgcgtgtatgtaaATGTCTCGCACTCAAAGGGTAATTGGTCTATCATCATACTGGACAAAGATATGCTCTGACGGCGGCTTGA
>TCONS_00043671
ACTTGAAATATTTTTGCTAGCGACCGACATTGTGCTCAGCACGAGTTCGCGCCTGAATTCAGGCCTAGCGCGTGTTGTAAACAAACGGGAAGCCGGTGGTTCCGCACTCCCCTCCATTACGCTCACTGTAAAGTTAGGGATTTTGCGTATTTTCGACTAAAGTAACTGATCGTGTGTTTTATTTACActttcattattatcatcagctaaAGTGCTTGTTGTTCGGCTGTGCTAACGGACTCTTTCCATGCAGTGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGCAGGAGGCCAGTGGATCTCCTACACCGAAGAGACCCAGAGGAAGA
>TCONS_00043672
TTCATTCGCAGCTCGCGGACCTCGCTGGTGTGCACACTTTGGACTTTGTCCCGACCGCTCCTTTAAAAGGTGTTCCAGTAAGACACAATGAGTGATTCTGGCAAGGACACAGTGGCGACTAAAGAGAAAGATGGAGCAGAGAAGAGAGGACGTGGAAGACCCCGAAAACACCCACAGGTGCTGTTCTGCTCTCCAGCGCGGGCTGCTGGTGTTCTCGTATAGCTGAGGCGGTAACCCTGCCCTTGTTTTGCGTTAAGATTTTTTTAAGTAGAtgcctgttgatttttttttacacatttggcAGTCTTGCACCTCAAGTGTAACCCCGTTTTTTGTGCGATAAGCTGGTTTAAGCGCTCCGCGCTATCAGTTTACGTCAGGGTCTTTGTTTAGTTGCGTCTAGCGCTCATTTGCACACGCTTCACATGTGCAGTGGTCATCTGTAGTGGCAGGATGACCAAGGCCTGTAACATGATCTCTTTAAACCAGCAGTAACCCACTTACTGCTTCAGCTGCGCGCTGATTGGCCGCCGGAGAGTGCCAGCGTCTGATTGGCTCATCCCACTGTCAATCACAGGGCCTCGCGAGTGCATTGGGTTTAAAGTTTCTATTACTCACCCGTGTAATCAGAGCCTTTGAGTAGTAATCCATGGCCACCATCATACAACAAGACAGTGCTCGTCCTGTAGCCGtcgtttatctttttattttaacaaaagatgatttgGTTAAAACAATGAGTAAA

Function

symbol description
hmga1a Predicted to enable transcription coregulator activity. Acts upstream of or within regulation of RNA splicing. Predicted to be located in chromatin. Predicted to be active in nucleus. Is expressed in DEL; central nervous system; heart; margin; and otic vesicle. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human HMGA1 (high mobility group AT-hook 1).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0043484 regulation of RNA splicing biological_process
GO:0006284 base-excision repair biological_process
GO:0000785 chromatin cellular_component
GO:0005634 nucleus cellular_component
GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity molecular_function
GO:0003677 DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-010502-1 Predicted to enable transcription coregulator activity. Acts upstream of or within regulation of RNA splicing. Predicted to be located in chromatin. Predicted to be active in nucleus. Is expressed in DEL; central nervous system; heart; margin; and otic vesicle. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human HMGA1 (high mobility group AT-hook 1).

Ensembl:

ensembl_id ENSDARG00000028335

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00043665 False 2416 mRNA 0.45 5 3751451 3759511
TCONS_00043666 False 2593 mRNA 0.45 5 3751458 3759692
TCONS_00043667 False 964 mRNA 0.48 5 3752836 3758824
TCONS_00043668 False 847 lncRNA 0.49 4 3752862 3759457
TCONS_00043669 False 814 mRNA 0.49 5 3752979 3759345
TCONS_00043670 False 733 mRNA 0.51 5 3753042 3758637
TCONS_00043671 False 405 mRNA 0.48 2 3757218 3758716
TCONS_00043672 True 745 lncRNA 0.48 2 3757789 3759436

Neighbor

gene id symbol gene type direction distance location
XLOC_022102 NA coding downstream 20845 3728090 ~ 3730606 (-)
XLOC_022101 nudt3a coding downstream 30007 3710946 ~ 3721444 (-)
XLOC_022100 pacsin1a coding downstream 47882 3653386 ~ 3703569 (-)
XLOC_022099 rnf114 coding downstream 239821 3503596 ~ 3511630 (-)
XLOC_022098 NA coding downstream 300072 3450998 ~ 3451379 (-)
XLOC_022104 opn7b coding upstream 17963 3777655 ~ 3802071 (-)
XLOC_022105 slc9a8 coding upstream 189856 3949548 ~ 4019928 (-)
XLOC_022106 FQ323119.1 coding upstream 326801 4086493 ~ 4091009 (-)
XLOC_022107 aar2 coding upstream 456504 4216196 ~ 4225830 (-)
XLOC_022108 zgc:171857 coding upstream 632455 4392147 ~ 4409668 (-)
XLOC_022096 AL954726.1 non-coding downstream 695355 3055981 ~ 3056096 (-)
XLOC_022095 NA non-coding downstream 759344 2960218 ~ 2992107 (-)
XLOC_022093 NA non-coding downstream 907197 2842399 ~ 2844254 (-)
XLOC_022117 FO904870.1 non-coding upstream 1360040 5119732 ~ 5126166 (-)
XLOC_022118 NA non-coding upstream 1431085 5190777 ~ 5199754 (-)
XLOC_022119 CR936540.1 non-coding upstream 1451329 5211021 ~ 5365345 (-)
XLOC_022120 dre-let-7a-5 non-coding upstream 1671504 5431196 ~ 5431319 (-)
XLOC_022121 dre-let-7e non-coding upstream 1671726 5431418 ~ 5431517 (-)

Expression


Co-expression Network