XLOC_033469 (snrpa1)


Basic Information

Item Value
gene id XLOC_033469
gene name snrpa1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007118.7
NCBI id CM002891.2
chromosome length 74282399
location 9290929 ~ 9305581 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00065502
gcggtgttttgttttttgtctcgAGAAGAACTAAACAGATACTTCCGTTTGGCGGCAGCGTGTACGAATGTTACACGTTCACAATAAACTTTTGACCAAACACAGTTTTCTCCGCTTAGACTAGTTTCTCTTGTTTTTCTTTGGTCTCTGCGGCGGACATGGTGAAGCTGACGGCGGAGTTGATCGAGCAGGCGGCGCAGTACACGAACCCTGTGCGGGACAGAGAGCTGGATCTGCGCGGCTATAAAATCCCTGTGCTAGAGAATCTGGGCGCCACTCTGGATCAGTTTGATACCATCGATCTGTCGGATAATGAGGTCAGAAAACTGGATGGGTTTCCGCTGCTGAAGAGACTCAAAACGCTGCTGGTGAACAACAACAGAATCTGCCGAATTGGAGAGAACTTGGAGCAGGCTTTACCAGACCTGAAGGAGCTCATTCTCACAAGCAACAACATTCAAGAGCTGGGTGATTTGGATCCTCTTGCCACAGTAAAATCTTTGAGTCTGCTCAGTCTCCTCAGGAATCCAGTTACCAACAAGAAACATTACAGATTATATGTCATCAATAAAATTCCACAGATCCGAGTTCTGGACTTCCAGAAGGTCAAACTGAAGGAACGTCAGGAGGCGGAAAAAATGTTCAAAGGCAAACGCGGTGCTCAGCTTGCAAAGGATATTGCCAAGCAATCCAAAACGTTCACTCCTGGAGCTGGACTGCAAACCGAGAAGAAAACAGGCCCGTCTGCTGCCGAGGTTGAAGCCATCAAGAATGCTATCGCTAATGCTACGTCACTGGCTGAAGTGGAGCGGCTGAAGGGACTCCTGCAGGCTGGACAGATTCCAGGACGAGACCTCAGATCAGGAGCAGGGAACATggtggaggaggaagaagaggaggagatgtCTGAGTCTGTGCCCATGTTTGAGGACATGCAGGGAGAAAACAATGATGAAGACATGCAGGAGGAAATGCATGTGAATGGATCGTAGTTCTGTTCGGTTGTTGATGTTTCAGAATCATTTAATGCCGTTTTGATGCTGTATTTGACAGCACTTGTTTTCAGAAGTGTTGCTTTGTTTGTAAATTTAAAgtacattaaacatttttttatg
>TCONS_00065503
AGATACTTCCGTTTGGCGGCAGCGTGTACGAATGTTACACGTTCACAATAAACTTTTGACCAAACACAGTTTTCTCCGCTTAGACTAGTTTCTCTTGTTTTTCTTTGGTCTCTGCGGCGGACATGGTGAAGCTGACGGCGGAGTTGATCGAGCAGGCGGCGCAGTACACGAACCCTGTGCGGGACAGAGAGCTGGATCTGCGCGGCTATAAAATCCCTGTGCTAGAGAATCTGGGCGCCACTCTGGATCAGTTTGATACCATCGATCTGTCGGATAATGAGGTCAGAAAACTGGATGGGTTTCCGCTGCTGAAGAGACTCAAAACGCTGCTGGTGAACAACAACAGAATCTGCCGAATTGGAGAGAACTTGGAGCAGGCTTTACCAGACCTGAAGGAGCTCATTCTCACAAGCAACAACATTCAAGAGCTGGGTGATTTGGATCCTCTTGCCACAGTAAAATCTTTGAGTCTGCTCAGTCTCCTCAGGAATCCAGTTACCAACAAGAAACATTACAGATTATATGTCATCAATAAAATTCCACAGATCCGAGTTCTGGACTTCCAGAAGGTCAAACTGAAGGTTCACTCCTGGAGCTGGACTGCAAACCGAGAAGAAAACAGGCCCGTCTGCTGCCGAGGTTGAAGCCATCAAGAATGCTATCGCTAATGCTACGTCACTGGCTGAAGTGGAGCGGCTGAAGGGACTCCTGCAGGCTGGACAGATTCCAGGACGAGACCTCAGATCAGGAGCAGGGAACATggtggaggaggaagaagaggaggagatgtCTGAGTCTGTGCCCATGTTTGAGGACATGCAGGGAGAAAACAATGATGAAGACATGCAGGAGGAAATGCATGTGAATGGATCGTAGTTCTGTTCGGTTGTTGATGTTTCAGAATCATTTAATGCCGTTTTGATGCTGTATTTGACAGCACTTGTTTTCAGAAGTGTTGCTTTGTTTGTAAATTTAAAgtacattaaacatttttttatgaa
>TCONS_00065504
CAATGTACTGGCAATTGAAGGAAAGCATAATCTGCATTTTACAGCAGCTTTATTAACAAGATGTGCATGAAAATCACCATTTATTAATTGGCCTGAAGTGTACACTTATTTTCTATTAACATTAATTTGAAATAACTGGATTGCATTGATCATTGAATAACGCACATGTGAAGAACAGTGTTGCAATGGTCTGTTGTGAACGTTTTGCTTTAACTCTCTGCTGTATCACCAGGAACGTCAGGAGGCGGAAAAAATGTTCAAAGGCAAACGCGGTGCTCAGCTTGCAAAGGATATTGCCAAGCAATCCAAAACGTTCACTCCTGGAGCTGGACTGCAAACCGAGAAGAAAACAGGCCCGTCTGCTGCCGAGGTTGAAGCCATCAAGAATGCTATCGCTAATGCTACGTCACTGGCTGAAGTGGAGCGGCTGAAGGGACTCCTGCAGGCTGGACAGATTCCAGGACGAGACCTCAGATCAGGAGCAGGGAACATggtggaggaggaagaagaggaggagatgtCTGAGTCTGTGCCCATGTTTGAGGACATGCAGGGAGAAAACAATGATGAAGACATGCAGGAGGAAATGCATGTGAATGGATCGTAGTTCTGTTCGGTTGTTGATGTTTCAGAATCATTTAATGCCGTTTTGATGCTGTATTTGACAGCACTTGTTTTCAGAAGTGTTGCTTTGTTTGTAAATTTAAAgtacattaaacatttttttatgaa
>TCONS_00065505
gaaatatttctgTTACCCAATCACATCAGTCTGCCATAAAAGACGATCATTAACTCCTTGGCAGCATATGGGTTCGGTTTGCCATGTATTTATGCACATTTGgaagtttaaaaagtaaaaaaaatcctttaaaaagcATGAAAGAGGCAGCTTAAAATATGAAACTGATGTGGTTGTCTGATAGAAAACAGTCAAATACACTACAGGTGAGTAAATCATGGGGTGAATTTTAATCTTCATGTGAACTATTCTTTTATACTCGATTTTTAGTGTTAAACTTCGGCAGTGTTTTCTCAGGAGAGCTGGCTCAAGGCTTTTCTGTCTCGTATCAGTTTATTGACATTGATGAGATACTCCAGTTACTACACTCTGATTATGGGTACAGTGGTTTAAAGGCTGCAGAAGCATTGTAAACGGGAATATCGTCTAAACGCCCTACTACTGTTTCCCTCAGGTTCACTCCTGGAGCTGGACTGCAAACCGAGAAGAAAACAGGCCCGTCTGCTGCCGAGGTTGAAGCCATCAAGAATGCTATCGCTAATGCTACGTCACTGGCTGAAGTGGAGCGGCTGAAGGGACTCCTGCAGGCTGGACAGATTCCAGGACGAGACCTCAGATCAGGAGCAGGGAACATggtggaggaggaagaagaggaggagatgtCTGAGTCTGTGCCCATGTTTGAGGACATGCAGGGAGAAAACAATGATGAAGACATGCAGGAGGAAATGCATGTGAATGGATCGTAGTTCTGTTCGGTTGTTGATGTTTCAGAATCATTTAATGCCGTTTTGATGCTGTATTTGACAGCACTTGTTTTCAGAAGTGTTGCTTTGTTTGTAAATTTAAAgtacattaaacatttttttatgaa

Function

symbol description
snrpa1 Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of U2 snRNP. Is expressed in female organism. Human ortholog(s) of this gene implicated in connective tissue disease. Orthologous to human SNRPA1 (small nuclear ribonucleoprotein polypeptide A').

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0005686 U2 snRNP cellular_component
GO:0030620 U2 snRNA binding molecular_function

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-041114-82 Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of U2 snRNP. Is expressed in female organism. Human ortholog(s) of this gene implicated in connective tissue disease. Orthologous to human SNRPA1 (small nuclear ribonucleoprotein polypeptide A').

Ensembl:

ensembl_id ENSDARG00000024651

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00065502 False 1115 mRNA 0.47 9 9290929 9305579
TCONS_00065503 False 1001 nonsense_mediated_decay 0.47 8 9290965 9305581
TCONS_00065504 False 732 lncRNA 0.42 4 9299640 9305581
TCONS_00065505 True 874 lncRNA 0.41 3 9302610 9305581

Neighbor

gene id symbol gene type direction distance location
XLOC_033468 pcsk6 coding upstream 17606 9189547 ~ 9273323 (+)
XLOC_033467 NA coding upstream 227548 9061425 ~ 9063381 (+)
XLOC_033466 zgc:113057 coding upstream 244627 9008372 ~ 9046302 (+)
XLOC_033465 NA coding upstream 450314 8835309 ~ 8840615 (+)
XLOC_033464 si:ch211-1o7.2 coding upstream 609747 8670398 ~ 8681182 (+)
XLOC_033470 selenos coding downstream 3044 9308625 ~ 9322493 (+)
XLOC_033471 chsy1 coding downstream 20653 9326234 ~ 9511298 (+)
XLOC_033472 NA coding downstream 250463 9556044 ~ 9556645 (+)
XLOC_033473 lins1 coding downstream 568169 9873750 ~ 9895905 (+)
XLOC_033474 cers3a coding downstream 599046 9904627 ~ 9961727 (+)
XLOC_033463 NA non-coding upstream 664245 8623945 ~ 8626684 (+)
XLOC_033460 CR382283.1 non-coding upstream 861010 8428954 ~ 8429919 (+)
XLOC_033457 NA non-coding upstream 938622 8344719 ~ 8352307 (+)
XLOC_033476 NA non-coding downstream 747762 10053343 ~ 10054205 (+)
XLOC_033477 CU184872.1 non-coding downstream 942491 10248072 ~ 10248187 (+)
XLOC_033481 NA non-coding downstream 1361890 10667471 ~ 10681656 (+)
XLOC_033482 LO018300.1 non-coding downstream 1377906 10683487 ~ 10683607 (+)

Expression


Co-expression Network