XLOC_033216 (snrpc)


Basic Information

Item Value
gene id XLOC_033216
gene name snrpc
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007117.7
NCBI id CM002890.2
chromosome length 60270059
location 54430413 ~ 54433995 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00064520
CAAAGGCGTAAAAAGAGTCTCCATGTTCTACATCCGGTGGTTTTCGCCCCGCGCTGTTCCGCTGTGAAGATGCCGAAGTTTTATTGCGATTACTGTGACACATACCTGACACATGATTCGCCCTCGGTCAGAAAGACACACTGCAGTGGACGCAAACACAAAGAAAATGTGAAGGATTATTATCAGAAGTGGATGGAGGAGCAAGCTCAGTCTCTCATTGACAAAacgaCGGCTGCATTCCAGCAGGGTAAAATTCCGCCCACCCCGTTCCCTGGAGCCCCTCCACCTGGCGGATCCCTGCTACCTCATCCAAGCATTGGCGGACCTCCGAGACCGGGCATGTTACCAGCTCCACCGATGGGTGGTCCACCTATGATGCCCATGATGGGCCCCCCTCCTCATGCCATGATGCCTGGAGGACCAGGTCCAGGTATGCGGCCACCAATGGGTGGGCCTATGCAAATGATGCCTGGGCCACACATGATGCGACCTCCTGCTCGGCCAATGATGCCAGCCGTTAGACCTGGTATGGTGCGTCCTGATCGATAAAACTACAGTGCCATGACTTCCAACCCGATACCCACGGAAGCCAAATGTCTAAACTGGTTTTACAGTCGATTTGAAGAGTTTTATTGCCCATTTGCGTTTTATGATGACTGATGTCTGCGGTTCAGGAAACCTCGTTCCGCTTGAGTGACCGGGATTATCACAAATTCTTGTAAAATTTAATGAACCTTCCATTGGCTTTCATTTCATATTTATGACAGACCAGAGGGTGTTGCGTAATGGGTTTGTGTATGATGTGCGTTTATTACGTCGAtgcttatgtttttatttactgttgGGACTATTTTCACCATTTAGTTTTTCATgtattttgtgaaaataaaatggaaagctttttttcctttttttga

Function

symbol description
snrpc Predicted to enable pre-mRNA 5'-splice site binding activity. Acts upstream of or within regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U1 snRNP. Human ortholog(s) of this gene implicated in connective tissue disease; mixed connective tissue disease; and systemic lupus erythematosus. Orthologous to human SNRPC (small nuclear ribonucleoprotein polypeptide C).

GO:

id name namespace
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0000387 spliceosomal snRNP assembly biological_process
GO:0000395 mRNA 5'-splice site recognition biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0005634 nucleus cellular_component
GO:0005685 U1 snRNP cellular_component
GO:0000243 commitment complex cellular_component
GO:0071004 U2-type prespliceosome cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003729 mRNA binding molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0030619 U1 snRNA binding molecular_function
GO:0030627 pre-mRNA 5'-splice site binding molecular_function

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-020419-26 Predicted to enable pre-mRNA 5'-splice site binding activity. Acts upstream of or within regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U1 snRNP. Human ortholog(s) of this gene implicated in connective tissue disease; mixed connective tissue disease; and systemic lupus erythematosus. Orthologous to human SNRPC (small nuclear ribonucleoprotein polypeptide C).

Ensembl:

ensembl_id ENSDARG00000009871

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00064520 True 917 mRNA 0.48 6 54430413 54433995

Neighbor

gene id symbol gene type direction distance location
XLOC_033215 ilrun coding downstream 81845 54325008 ~ 54348568 (-)
XLOC_033214 SPDEF coding downstream 140186 54280365 ~ 54290227 (-)
XLOC_033213 rps10 coding downstream 249714 54174696 ~ 54180699 (-)
XLOC_033212 NA coding downstream 256340 54164932 ~ 54174073 (-)
XLOC_033211 tusc2a coding downstream 303950 54117004 ~ 54126463 (-)
XLOC_033217 sys1 coding upstream 4360 54438355 ~ 54444929 (-)
XLOC_033218 CR847944.2 coding upstream 25418 54459413 ~ 54465377 (-)
XLOC_033219 CR847944.1 coding upstream 47946 54481941 ~ 54486410 (-)
XLOC_033220 NA coding upstream 63809 54497804 ~ 54523451 (-)
XLOC_033221 dre-let-7a-6 coding upstream 72463 54506458 ~ 54506586 (-)
XLOC_033203 NA non-coding downstream 1172345 53252557 ~ 53258068 (-)
XLOC_033199 BX649282.4 non-coding downstream 1397302 53032996 ~ 53033111 (-)
XLOC_033198 BX649282.5 non-coding downstream 1506924 52923373 ~ 52923489 (-)
XLOC_033186 NA non-coding downstream 2395757 52026491 ~ 52034656 (-)
XLOC_033222 NA non-coding upstream 313953 54747948 ~ 54754115 (-)
XLOC_033225 CU861466.1 non-coding upstream 380926 54814921 ~ 54815037 (-)
XLOC_033227 NA non-coding upstream 442182 54876177 ~ 54886711 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000340_16656861_16660297 NA coding CI01000340 null 16656508 ~ 16660297 (-)