AMCG00013521 (snrpd2,SNRPD2,LOC106612977)


Basic Information

Item Value
gene id AMCG00013521
gene name snrpd2,SNRPD2,LOC106612977
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030125.1
NCBI id CM030125.1
chromosome length 49972098
location 33634739 ~ 33637208 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00013521
TCCTCATGctgttctctctgtctctgcttgGTTAGGAGTCTGTTAAATAAGCCCAAGTCTGAGATGACTCCCGAGGAGTTGCagaagagggaggaggaggagtttAACACAGGCCCTCTGTCTGTGCTTACCCAGTCGGTCAAGAATAACACCCAGGTGCTCATCAACTGCCGCAACAACAAGAAGCTGCTGGGCCGTGTCAAGGCCTTCGACAGGCACTGCAACATGGTGCTGGAGAACGTGAAGGAGATGTGGACAGAGGTTCCCAAGAGTGGCAAAGGGAAGAAGAAGTCCAAGCCCGTCAACAAGGACCGCTACATCTCCAAGATGTTCCTGCGAGGGGACTCGGTCATCGTGGTGCTGAGGAACCCCCTGATCACCGGGAAATAGAGCCGCCTCAGccaccctctcctctcctcccgcccccccaccccacctcatCGCTCACTCACAACAGCCCACCCTAGGGAGCCCCAGGCCTGCTCCCGGAGAGTGCACAGTATCTGGTTTGTGAGCTACCTCACTTTTATGCAGTCTCATAACTGGGCAAGGAAAGTTGATATATTTCAATTGTCAGATCTCTTAATGTTATTCACAAGCCTTGTATGTGACctgaaaaacacatctgtttgAGACCTAAAATCAATGGGTAATAAAATACCTGATTTCCTCAATGTAAAGTGTAACTGAGAGCTTAACAGATTCACAAACCCAGAAGACCatctctctccaggaccagcatTGGGGATCTGTAGCCTACACCCATTGCCCATCAACCCAAAAGGAATGCAGGCTTTGAAGAGCCTCTGTTAAAACCATAAGCACACCATTGCGTTCCAGCAGTATTCAGTCCAGCAAGGTCATAGAAGCTGAAGCAGAGAAGTGGAGGACATTCAGGTTAATAGCTTGTGtgctttcttaaaataatttgtcagGAAACCTCCCAGAGAATAATGTATATCTGCACCCCTccagaaaataagttaaactcTAGCTGCAACATACTTTAGGTTTAGCTGCAGAGTGCAATTGCATAGAAGTCTGGTGTTGGGATACAAGAGCTCCACTGACTAAGATGGTCCCAGATCAATCAGTTTATAGTGTAAAGGCATCTGACAGAACATCAGCACTGGTGTGGATGGAGTGGTGGCTATTAATGTGTTGGTAACACTGAAGggtaaattaattacaattcatACATGTAAAACCAAGTTATTAaaattttatttacaaagtatATGTGTGAGAGCTGACTTAATAACCTCCTAATGATCATTACTTGGTCTTATTGGTTATTGACACTATTTACACAACATATTCCAAGTGCAttcatataaagtgttaccaatgtAATTCATAGACCCATCAGTAGTTGGGGTTAATAACAAGGGCTCCGTGAAATGTACgcatttgtttcctttgatcggtttatttttgtgagaaatgtttgctttttttaaaataaaatgttgaattctTACACTGG

Function

symbol description
snrpd2 Predicted to be involved in spliceosomal snRNP assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus and viral nucleocapsid. Predicted to be part of spliceosomal complex and spliceosomal snRNP complex. Human ortholog(s) of this gene implicated in systemic lupus erythematosus. Orthologous to human SNRPD2 (small nuclear ribonucleoprotein D2 polypeptide).

NR:

description
small nuclear ribonucleoprotein Sm D2

GO:

id name namespace
GO:0000387 spliceosomal snRNP assembly biological_process
GO:0000245 spliceosomal complex assembly biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0034709 methylosome cellular_component
GO:0034715 pICln-Sm protein complex cellular_component
GO:0034719 SMN-Sm protein complex cellular_component
GO:0005829 cytosol cellular_component
GO:0019013 viral nucleocapsid cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0005685 U1 snRNP cellular_component
GO:0005687 U4 snRNP cellular_component
GO:0005689 U12-type spliceosomal complex cellular_component
GO:0005515 protein binding molecular_function

KEGG:

id description
K11096 SNRPD2, SMD2; small nuclear ribonucleoprotein D2

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00013521 True 1486 mRNA 0.44 2 33634739 33637208

Neighbor

gene id symbol gene type direction distance location
AMCG00013529 NA coding upstream 15258 33618300 ~ 33619481 (+)
AMCG00013522 NA coding upstream 20950 33610167 ~ 33613789 (+)
AMCG00013524 polr2i,rpb9,LOC102785323 coding upstream 39280 33592210 ~ 33595459 (+)
AMCG00013523 degs2,LOC106603795,LOC105011018 coding upstream 49560 33582554 ~ 33585179 (+)
AMCG00013519 NA coding upstream 96417 33537219 ~ 33538322 (+)
AMCG00013525 ppp5c coding downstream 10641 33647849 ~ 33661773 (+)
AMCG00013526 NA coding downstream 26869 33664077 ~ 33669293 (+)
AMCG00013530 NA coding downstream 33527 33670735 ~ 33693897 (+)
AMCG00013532 zgc:172282,LOC107697541,LOC107758157,LOC107678250,LOC107555640,LOC107749639 coding downstream 420405 34057613 ~ 34058995 (+)
AMCG00013533 NA coding downstream 443975 34081183 ~ 34084117 (+)
G44983 NA non-coding upstream 101584 33532772 ~ 33533155 (+)
G44954 NA non-coding upstream 193575 33439835 ~ 33441164 (+)
G44871 map3k10,LOC102787573 non-coding upstream 509290 33122020 ~ 33125449 (+)
G44869 NA non-coding upstream 531347 33103167 ~ 33103392 (+)
G44868 map3k10,LOC107554498,LOC107560156 non-coding upstream 531866 33102639 ~ 33102873 (+)
G45100 NA non-coding downstream 1295998 34933206 ~ 34933787 (+)
G45108 NA non-coding downstream 1413649 35050857 ~ 35057957 (+)
G45124 NA non-coding downstream 1482871 35120079 ~ 35120344 (+)
G45129 LOC105030512,LOC106584099,LOC106569888,LOC106613431,LOC106573797,LOC106609167 non-coding downstream 1504214 35141422 ~ 35142529 (+)
G45135 NA non-coding downstream 1538027 35175235 ~ 35175446 (+)
AMCG00013516 NA other upstream 185646 33442394 ~ 33449093 (+)
AMCG00013515 dpf1,LOC107561370,LOC107749650,LOC107672425,LOC102781105 other upstream 221898 33376520 ~ 33412841 (+)
G44870 NA other upstream 528144 33106292 ~ 33106595 (+)
AMCG00013478 NA other upstream 1179053 32423276 ~ 32455686 (+)
AMCG00013477 ppp1r37 other upstream 1234287 32393818 ~ 32400452 (+)
G45029 NA other downstream 58384 33695592 ~ 33699545 (+)
G45072 NA other downstream 477465 34114673 ~ 34114939 (+)
G45174 NA other downstream 1697682 35334890 ~ 35338052 (+)
G45209 LOC107575789 other downstream 2018094 35655302 ~ 35659833 (+)
AMCG00013560 sptbn4,LOC107602096,LOC103155361 other downstream 2423547 36060755 ~ 36085843 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_013580 snrpd2 coding NC_007129.7 CM002902.2 40875873 ~ 40884087 (-)