XLOC_013710 (syngap1a)


Basic Information

Item Value
gene id XLOC_013710
gene name syngap1a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 232536 ~ 276802 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00027473
CGACTCCCCCGGCTGGAGCCGACAGCTCCGCGTCAGAGATGGAGACCAGTTCTACCTGCTGGATCAAGAGGAggttcATCCACTGCTGATGAATGATCATCGTCCCGTCTCTCACCGACACAAACTGCTGCGCAGGACCGTCAGCGTACCTGCAGATAGCAGACCCCACCCTGagtcagagcaCGCTCGTGCTCGCAGGAAGAGCTTTGCCACGTCGCGGCAGAGAAGCATGGAAACTCCGCCCACTGCCCCTACACAGCCATTTCGACAGCCTagTTTTCTCAGCCGCCGCTTGAAAGGATCAATTAAACGAGCAAAGAGTCAACCCAAACTCGACCGCACGGGAAGCTTCCGCCACATGATTCTCCCACGATTCCGCAGTGCTGACCAGGAGAGgacgcGTCTGATGCAGAGCTTTAAGGAGTCTCACTCTCATGAGTCTCTGCTGTCTCCGAGCAGCGCGGCCGAGGCTCTGGACCTCACGCTGGACGAGGACGCCATCATCAAACCCGTCCACTCCAGCATCCTCGGCCAGGATATGATGTTGTATGATCTCCGTCTTCAGGTGACCACGGCGTCAGGAACCAAGTGTTTCGCCTGCCGCTCCGCTGCTGAGAGAGACAAATGGATCGAGAATCTGCAGCGAGCCGTCAAACCAAACAAGgacaaCAGTCGTCGTGTGGATAACGTGCTGAAGTTATGGATCATCGAGGCTCGAGATCTGCCACCGAAGAAGCGCTACTACTGCGAGCTGTGTCTGGACGACATGCTGTACGCTCGAACCACCAGCAAACCGCGCACCGACACCGTCTTCTGGGGCGAACACTTCGAGTTCAACAACCTGCCGGCCATCCGCAGCCTCCGACTGCACCTCTACAAGGAGAACGACAAGAAGAGGAGGAAGgagaagAGCACGTATCTGGGTCTGGTCAGCATCCCGATCCCGAGCGTGACGGGTCGTCAGTTTGTGGAGCAGTGGTACCCGCTCATCCAGCCCAGTGTTCTGGCTAAAGGCGGCGGCGGCGGGGGGAAGATCATCAACGCCTCGCTGCGCCTCAAGTCCCGCTTCCAGAGCATGAACATCCTGCCCATGGAGCTCTACAAGGAGTTCGCCGAGTACGTCACCAACAACTACCGCACGCTCTGCGGAGTGCTGGAGCCGCTGCTCAGCGCCAAGAGCAAAGAGGAGGTGGCCTGCGCGCTAGTGCACATCCTGCAGAGCACTGGGAAGGCCAAGgactTCCTGTCTGACATGGCCATGTGTGAGGTGGATCGTTTCATGGACCGTGAGCATCTGATCTTCAGAGAAAACACTCTCGCCACTAAAGCCATCGAGGAGTTCCTGAAGCTCATCGCACACCGCTACCTGAAGGACACCATCGgagagtTCATCCGTGCGCTGTACGAGTCTGAGGAGAACTGTGAGGTGGACCCGATGCGAACGCCTCCGTCAGTGCTGGCCGATCATCAGGCTAACCTGCGCATGTGCTGTGAGCTAGCGCTCTGCAAGATCATCAACTCTCACTGcgtgTTTCCCCGTGAGCTGAAGGAGGTGTTTGCGTCGTGGCGTGTGCGCTGTGCTGAGCGCGGCCGAGAGGACATCGCCGACCGCCTCATCAGCTCCTCGCTCTTCCTGCGCTTCCTGTGTCCGGCGATCATGTCCCCGTCCCTCTTCAACCTGACGCAGGAGTATCCCTCCGAGCGCACCTCTCGAACCCTCACGCTCATCGCCAAGGTGGTGCAGAGCCTGGCCAGCTTTTCAAAGTTCAGTGGGAAGGAGGACTATCTGGGCTTCATGAATGAGTTTCTGGAGATGGAGTGGGGCTCCATGCAGCAGTTCCTCTACGAGATCTCCAATCTGGAGTGTGTGAGTAACGCCGGGGCGTTCGAGGGCTACATCGACCTGGGCCGCGAGCTCTCCATCCTGCACAGTCTGCTGTGGGAGGTCATGGCCCAGCTCAGCAAGGATGCGATCCTGAAGCTGGGTCCTCTGCCGCGGCTGCTGAATGACATCAGTGTGGCCCTGCGTAACCCTCAGCTGCACAGACAGGCCAGCCACCAGCCACCCGAGCGACACCTGAGCCGGCCTGCGTTCAGCAGACTCGCCACCAATGACTTCCAGAGCCTCATGATGAGAGACCTCAACagctccaTAGACATCTCTCGACTGCCGTCTCCTACAGCCGGTCTGTCCGGCAGCGGTGTTCTCTCTCACCCGGGCATGGCTGCGTTCTCAGAGCGAGATCCCCGCGGCAACAAAGACGTCTTCTATGTGACCCGCCCACCTCTCGCACGCTCAAGCCCCGCCTACTGCACCAGCAGCTCTGACATCACTGAGCCAGACCCcaagGTACTCAGCGTCAATAAGAGTGTGTCTATGATGGACCTGCAGGACTCGCGCATCAACAGCGTGTCTAACCTGCACTCAGTGAATGATCTGCTGAACTCGTCTCAGGGTTCTCTGGCTGGGTTCGGTCCGCTCGGCGGTGCCCCCCTCAGGGCTGGAGGACGCGTGTCTGCGGGCTCGGGCGGCTCCAGCATGTCTGGCGGTCTGCGTTTGACCACAGACTCTCTGTCGCAGCAGCAACAGCAGGCCGCCGCCGCCATGCACGTGCCGCTGTCCTTCCAGAACCCTCTGTTCCACCTAGCATCAGATGGGCCGCAGTATCACACACCTCCACACGGGCCCACTGCTGTACCGCCACCGCTGCTGCTGGCGCCCGAGCCAGAGAACGGGCATGTGGGTTTCGGCGTTCCCACATTCGCCCACAGTGGGTTCTCCCGCAGTGAAGATCTGTCAGCGCTGCGGACGCAGAACAGTCTGGTGCAGCCCAACATCGTGCACTCGCACAGCTACAGCGACGACTTCACACGACACAACCAGGCCGACTACGCCCGCAGACAGCTGTCTCTGCAGGTGCAGGAGAATCTCCAGCAGCAGGTGCTGATGGGAATGACCCCGCAGACGGCCACAGGCACCGGCACTCCTGCTTCTCTGGCCACACCTCCCACCACCATTCATCCTGTCCGTCAGGCCTCCATGGCTCCGCCCCCTCCTCAACGCGCGAAGCCTCAGCCCGCCCACCAGCTGTCCGTCAGCTCGGCTGTAAACTCCACCCCCCCTAAGACCCGCCCACAGAGCGGCAACCTCCTCCAATCGCCTGAGTCTAGTTTTGGAGGGAGGCAGTTGACAAGGCAGCAGCTGTCAGTCAAGGACAGCCCCGCCCCCGGGTTGCCGCATCAGTCCAGCAATGCGTCGGAGAATCCCGCTCCTCAGAGCGCAGCCAATGAGAGCACAGAGAATACGCCGACCAACCAATCAGCAAAAAACACACAGCAGAGCAACCAACAACACCTGCTCAAGCCATCCGGGAACAAACagggcTCTAAGTCTCCCTCCACCCTGAACCCCACCTCTGCAGCCTCCGAGCGCACCGTGGCCTGGGTCTCCAACATGCCACATCTGTCTGCAGACATCGAGAGTCTGCGCGTGGACAGAGAGGAGTTCAAACTCAAGGAGCACTCCAAGAGCATGGATGAGTCCCGCCTGGACCGGGTGCGTGAGTACGAGGAGGAGATCAACTCCCTGAAGGAGCGTCTGATGATGTCCCACCGTAAGCTGGAGGAGTACGAGCGACGGCTACACTCGCAGGAGCAGCAGACCAGCAAGATTCTGCTGCAGTACCAGAGCCGGCTGGACGACAGCGAGAGGCGCCTGCGGCAGCAGCAGGTGGAGAAGGACTCGCAGATCAAGGGCATCATCAACAGgttgATGGCGGTAGAGGATGAGCTGAGGGGAAGTGGAATGCCTGACCTCAAAACCAGAATATTCACAGAACAGCCGATTTATGGTGCCCACTCTGGAACATGATTGGCCCCTGCAGGACTAGAGGACATGTGGCTGAACCTCCACCCAGGAATGTCTGATGATTGGctgagagagaagagagaggcGGAGCCAGAGCTGGACGACCAACTTTAACTctacacactctctctttctttctctttctctcacacacacacattatgagagtatatatatgtttatgtaactgatatataaatatatattcctcagatgtgtctctctctctctctttctctctttcttctcAATTTTTGAGCCAAATGGACGACAATCAGCATCTTTGAGGCCGAAACAATCACACTGATAGCACAAAGAAAACCCCGGAGGACAGACTGacggagagggagagagagaggtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttctttatgaTGCTCTCCTTCTCTTCCCAttatcctctctctctctctctctctctctctctctctctctactgcaggagtgtgtttgtgtacgtgtgtgtgtgtgtgagtgtgtttttgaGCAGTTGCAGCCTCAACTTCCTAATAATGACTCAATAACGAATCTCGTGTTTTTCAAATCATGTTTTGAGGAGCTTTGATTCTCTCTGAGCCAATCAGACGCT
>TCONS_00027474
ATGAATGATCATCGTCCCGTCTCTCACCGACACAAACTGCTGCGCAGGACCGTCAGCGTACCTGCAGATAGCAGACCCCACCCTGagtcagagcaCGCTCGTGCTCGCAGGAAGAGCTTTGCCACGTCGCGGCAGAGAAGCATGGAAACTCCGCCCACTGCCCCTACACAGCCATTTCGACAGCCTagTTTTCTCAGCCGCCGCTTGAAAGGATCAATTAAACGAGCAAAGAGTCAACCCAAACTCGACCGCACGGGAAGCTTCCGCCACATGATTCTCCCACGATTCCGCAGTGCTGACCAGGAGAGgacgcGTCTGATGCAGAGCTTTAAGGAGTCTCACTCTCATGAGTCTCTGCTGTCTCCGAGCAGCGCGGCCGAGGCTCTGGACCTCACGCTGGACGAGGACGCCATCATCAAACCCGTCCACTCCAGCATCCTCGGCCAGGAGTACTGCTTCgagGTGACCACGGCGTCAGGAACCAAGTGTTTCGCCTGCCGCTCCGCTGCTGAGAGAGACAAATGGATCGAGAATCTGCAGCGAGCCGTCAAACCAAACAAGgacaaCAGTCGTCGTGTGGATAACGTGCTGAAGTTATGGATCATCGAGGCTCGAGATCTGCCACCGAAGAAGCGCTACTACTGCGAGCTGTGTCTGGACGACATGCTGTACGCTCGAACCACCAGCAAACCGCGCACCGACACCGTCTTCTGGGGCGAACACTTCGAGTTCAACAACCTGCCGGCCATCCGCAGCCTCCGACTGCACCTCTACAAGGAGAACGACAAGAAGAGGAGGAAGgagaagAGCACGTATCTGGGTCTGGTCAGCATCCCGATCCCGAGCGTGACGGGTCGTCAGTTTGTGGAGCAGTGGTACCCGCTCATCCAGCCCAGTGTTCTGGCTAAAGGCGGCGGCGGCGGGGGGAAGATCATCAACGCCTCGCTGCGCCTCAAGTCCCGCTTCCAGAGCATGAACATCCTGCCCATGGAGCTCTACAAGGAGTTCGCCGAGTACGTCACCAACAACTACCGCACGCTCTGCGGAGTGCTGGAGCCGCTGCTCAGCGCCAAGAGCAAAGAGGAGGTGGCCTGCGCGCTAGTGCACATCCTGCAGAGCACTGGGAAGGCCAAGgactTCCTGTCTGACATGGCCATGTGTGAGGTGGATCGTTTCATGGACCGTGAGCATCTGATCTTCAGAGAAAACACTCTCGCCACTAAAGCCATCGAGGAGTTCCTGAAGCTCATCGCACACCGCTACCTGAAGGACACCATCGgagagtTCATCCGTGCGCTGTACGAGTCTGAGGAGAACTGTGAGGTGGACCCGATGCGAACGCCTCCGTCAGTGCTGGCCGATCATCAGGCTAACCTGCGCATGTGCTGTGAGCTAGCGCTCTGCAAGATCATCAACTCTCACTGcgtgTTTCCCCGTGAGCTGAAGGAGGTGTTTGCGTCGTGGCGTGTGCGCTGTGCTGAGCGCGGCCGAGAGGACATCGCCGACCGCCTCATCAGCTCCTCGCTCTTCCTGCGCTTCCTGTGTCCGGCGATCATGTCCCCGTCCCTCTTCAACCTGACGCAGGAGTATCCCTCCGAGCGCACCTCTCGAACCCTCACGCTCATCGCCAAGGTGGTGCAGAGCCTGGCCAGCTTTTCAAAGTTCAGTGGGAAGGAGGACTATCTGGGCTTCATGAATGAGTTTCTGGAGATGGAGTGGGGCTCCATGCAGCAGTTCCTCTACGAGATCTCCAATCTGGAGTGTGTGAGTAACGCCGGGGCGTTCGAGGGCTACATCGACCTGGGCCGCGAGCTCTCCATCCTGCACAGTCTGCTGTGGGAGGTCATGGCCCAGCTCAGCAAGGATGCGATCCTGAAGCTGGGTCCTCTGCCGCGGCTGCTGAATGACATCAGTGTGGCCCTGCGTAACCCTCAGCTGCACAGACAGGCCAGCCACCAGCCACCCGAGCGACACCTGAGCCGGCCTGCGTTCAGCAGACTCGCCACCAATGACTTCCAGAGCCTCATGATGAGAGACCTCAACagctccaTAGACATCTCTCGACTGCCGTCTCCTACAGCCGGTCTGTCCGGCAGCGGTGTTCTCTCTCACCCGGGCATGGCTGCGTTCTCAGAGCGAGATCCCCGCGGCAACAAAGACGTCTTCTATGTGACCCGCCCACCTCTCGCACGCTCAAGCCCCGCCTACTGCACCAGCAGCTCTGACATCACTGAGCCAGACCCcaagGTACTCAGCGTCAATAAGAGTGTGTCTATGATGGACCTGCAGGACTCGCGCATCAACAGCGTGTCTAACCTGCACTCAGTGAATGATCTGCTGAACTCGTCTCAGGGTTCTCTGGCTGGGTTCGGTCCGCTCGGCGGTGCCCCCCTCAGGGCTGGAGGACGCGTGTCTGCGGGCTCGGGCGGCTCCAGCATGTCTGGCGGTCTGCGTTTGACCACAGACTCTCTGTCGCAGCAGCAACAGCAGGCCGCCGCCGCCATGCACGTGCCGCTGTCCTTCCAGAACCCTCTGTTCCACCTAGCATCAGATGGGCCGCAGTATCACACACCTCCACACGGGCCCACTGCTGTACCGCCACCGCTGCTGCTGGCGCCCGAGCCAGAGAACGGGCATGTGGGTTTCGGCGTTCCCACATTCGCCCACAGTGGGTTCTCCCGCAGTGAAGATCTGTCAGCGCTGCGGACGCAGAACAGTCTGGTGCAGCCCAACATCGTGCACTCGCACAGCTACAGCGACGACTTCACACGACACAACCAGGCCGACTACGCCCGCAGACAGCTGTCTCTGCAGGTGCAGGAGAATCTCCAGCAGCAGGTGCTGATGGGAATGACCCCGCAGACGGCCACAGGCACCGGCACTCCTGCTTCTCTGGCCACACCTCCCACCACCATTCATCCTGTCCGTCAGGCCTCCATGGCTCCGCCCCCTCCTCAACGCGCGAAGCCTCAGCCCGCCCACCAGCTGTCCGTCAGCTCGGCTGTAAACTCCACCCCCCCTAAGACCCGCCCACAGAGCGGCAACCTCCTCCAATCGCCTGAGTCTAGTTTTGGAGGGAGGCAGTTGACAAGGCAGCAGCTGTCAGTCAAGGACAGCCCCGCCCCCGGGTTGCCGCATCAGTCCAGCAATGCGTCGGAGAATCCCGCTCCTCAGAGCGCAGCCAATGAGAGCACAGAGAATACGCCGACCAACCAATCAGCAAAAAACACACAGCAGAGCAACCAACAACACCTGCTCAAGCCATCCGGGAACAAACagggcTCTAAGTCTCCCTCCACCCTGAACCCCACCTCTGCAGCCTCCGAGCGCACCGTGGCCTGGGTCTCCAACATGCCACATCTGTCTGCAGACATCGAGAGTCTGCGCGTGGACAGAGAGGAGTTCAAACTCAAGGAGCACTCCAAGAGCATGGATGAGTCCCGCCTGGACCGGGTGCGTGAGTACGAGGAGGAGATCAACTCCCTGAAGGAGCGTCTGATGATGTCCCACCGTAAGCTGGAGGAGTACGAGCGACGGCTACACTCGCAGGAGCAGCAGACCAGCAAGATTCTGCTGCAGTACCAGAGCCGGCTGGACGACAGCGAGAGGCGCCTGCGGCAGCAGCAGGTGGAGAAGGACTCGCAGATCAAGGGCATCATCAACAGgttgATGGCGGTAGAGGATGAGCTGAGGGGAAGTGGAATGCCTGACCTCAAAACCAGAATATTCACAGAACAGCCGATTTATGGTGCCCACTCTGGAACATGA

Function

symbol description
syngap1a Predicted to enable GTPase activator activity. Predicted to act upstream of or within regulation of GTPase activity and signal transduction. Is expressed in forebrain and hindbrain. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 5. Orthologous to human SYNGAP1 (synaptic Ras GTPase activating protein 1).

GO:

id name namespace
GO:0043087 regulation of GTPase activity biological_process
GO:0007165 signal transduction biological_process

KEGG: NA

ZFIN:

id description
ZDB-GENE-060503-370 Predicted to enable GTPase activator activity. Predicted to act upstream of or within regulation of GTPase activity and signal transduction. Is expressed in forebrain and hindbrain. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 5. Orthologous to human SYNGAP1 (synaptic Ras GTPase activating protein 1).

Ensembl:

ensembl_id ENSDARG00000063713

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00027473 False 4480 mRNA 0.58 20 232536 276802
TCONS_00027474 True 3768 mRNA 0.60 19 233143 276193

Neighbor

gene id symbol gene type direction distance location
XLOC_013709 scn1bb coding upstream 20058 206835 ~ 212478 (+)
XLOC_013708 NA coding upstream 37581 194582 ~ 194955 (+)
XLOC_013707 tmem65 coding upstream 46922 177455 ~ 185614 (+)
XLOC_013706 rnf139 coding upstream 56559 170705 ~ 175977 (+)
XLOC_013705 tatdn1 coding upstream 62690 167612 ~ 169846 (+)
XLOC_013711 ctss1 coding downstream 33692 310494 ~ 317532 (+)
XLOC_013712 CR548627.1 coding downstream 58825 335627 ~ 335741 (+)
XLOC_013713 ensaa coding downstream 65292 342094 ~ 344188 (+)
XLOC_013714 mcl1a coding downstream 71927 348729 ~ 353231 (+)
XLOC_013715 vps72a coding downstream 89232 366034 ~ 373158 (+)
XLOC_013701 NA non-coding upstream 110559 116357 ~ 121977 (+)
XLOC_013700 CU633999.2 non-coding upstream 164478 67006 ~ 68058 (+)
XLOC_013696 NA non-coding upstream 220022 11142 ~ 12514 (+)
XLOC_013695 NA non-coding upstream 222150 8273 ~ 10386 (+)
XLOC_013717 NA non-coding downstream 155798 432600 ~ 436474 (+)
XLOC_013718 NA non-coding downstream 162203 439005 ~ 457510 (+)
XLOC_013719 CABZ01010098.1 non-coding downstream 221151 497953 ~ 507940 (+)
XLOC_013720 NA non-coding downstream 233443 510245 ~ 517374 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000117_00263368_00291106 SYNGAP1A coding CI01000117 null 262281 ~ 292745 (-)
bowfin (Amia calva) AMCG00006211 LOC102301914 coding CM030134.1 CM030134.1 70319 ~ 89489 (-)