LOC110502481 (smndc1)


Basic Information

Item Value
gene id LOC110502481
gene name smndc1
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048587.1
NCBI id CM023241.2
chromosome length 62880378
location 24754565 ~ 24766770 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_021580529.2
caaatttctaccctgctatagctgccccggtcaaaatcgtctttcctcggttgcaacactctacCGAAGCAACGTCCGCAAAAAAACTGTTCATGAAATGGGtctccatggccaagcagccgcagacaagcctaagatcaccatgtgcaatgccaagcgttggctggagtggtgtaaagctcgccaccattggactggagcagtggaaactcgttcACTGGAGTGAGGAATCACGCTTCGCCTTCTGGCAGTCTggcggacaaatctgggtttcgCGGATGCCAGGAGAGCGCTACCTTCCTGATtaaggtttggtggaggaggaataatggtctggtgctgtttttcatagttcggATGTCAGAGGATTTGTTGAAACAGTTGGGCAGCTACAAAGCACAGTTGCAACAAGTGGAAGCCGCCTTATCAACCGACCCTGAAAATGAAGACCTTCTCAAATTACAGAAAGACTTATCGGAAGTCATAGACTTAACAAAAGACCTCCTGACGTCGCAGCCCTCCGAAGGTACTGCTACTGCCAACAGCTCAGATGCAGCCCCCCTGAAACATAGGTGGAGCGTTGGGGACAGGTGTATGACTGTGTGGAGTCAGGATGGACAGGTGTATGAAGCTGAGATTGAGGAGATAGACGGCGAGAATGGCACGGCGGCCATCACCTTCTCCGGCTACGGGAACGCAGAGGTGGTGCCACTGCAGAACCTCAAGCCTGCCGAGGAGGGCAAGCACTCTGAGGATGACGGGAAATCCAAGTCCAGGAAGGAGCAGATAGCAGACCAGAGGGAGTACAAGAAGAAGAAGGCCCAGAAGAAGGTGCTGAGGATGAAGGAACTGGAACAGGAGCGAGAAGACCAGAAATCCAAGTGGCAGAGTTTTAACAACAAGGCCTATAACAAGAACAAGAAAGGACAGGTGAAGAGGAGTATATTTGCATCGCCGGAGAGTGTAAACGGCAAGGTGGGAGTAGGAACATGTGGCATAGCAGACAAACCCATGACCACGTATCACGACACATCCAAATATAACGTCAGGCATCTAATGCCACAGTGACCTAACATTTTATCTTTGTGTAAAAGTATCCTATTGTATAGTAGCAAGATCATTGCTTATCTTTGTGTGTTTATGGTTTGGGTTACCCCAGTAAAGGAGCTTTGAAACAAATTGCTTGCTCACCATTGGTTGCCTCATTGGGAAATTGTCCTTACCAGTATTATCACATAGAACAGCAGAATtcttaataaaataaataaccaCTGTAAATGGAGTTGCAGCACAAATAATGGTTGTGGTGAAATTAGTCTGGGTTGCTGTATCCTTCTGAATGCAACAAAGGCCAAAAAACTATTTCCATGTTTTTAATGTTACACATTTATTATAGATTTTTCAGGTTGAACTAGACTATAATATACATTTTTACGGTTTAGTGATAAGACCCTTTTTTAAAGCAAGTAATATAAAGCTAATTTTACATCTCAGTTTTGTACATTTACAGGGAAACAAATTGTTTTTTGTTTAGAGGTAAGATGTTCCTCTCATTTTTCCCTGAACCCTGAATTTTTCATATTGGTACTGAATGTTGTTTAACACAGTTCCTCCAGATGGCAGTAATGTATTTTATACCGTCTTTGTTCTGTGACGTATGTCAATGACCTTATGCCACTGCTGGTGATATAagctttttttaaaataaaatcagGGATGAGTTGTGGATTTTCCTATTAAACCTTCATGTTTGA
>XM_036960138.1
tcaaatttctaccctgctatagctgccccggtcaaaatcgtctttcctcggttgcaacactctacCGAAGCAACGTCCGCAAAAAAACTGTTCATGAAATGGGtctccatggccaagcagccgcagacaagcctaagatcaccatgtgcaatgccaagcgttggctggagtggtgtaaagctcgccaccattggactggagcagtggaaactcgttcACTGGAGTGAGGAATCACGCTTCGCCTTCTGGCAGTCTggcggacaaatctgggtttcgCGGATGCCAGGAGAGCGCTACCTTCCTGATtaagATGTCAGAGGATTTGTTGAAACAGTTGGGCAGCTACAAAGCACAGTTGCAACAAGTGGAAGCCGCCTTATCAACCGACCCTGAAAATGAAGACCTTCTCAAATTACAGAAAGACTTATCGGAAGTCATAGACTTAACAAAAGACCTCCTGACGTCGCAGCCCTCCGAAGGTACTGCTACTGCCAACAGCTCAGATGCAGCCCCCCTGAAACATAGGTGGAGCGTTGGGGACAGGTGTATGACTGTGTGGAGTCAGGATGGACAGGTGTATGAAGCTGAGATTGAGGAGATAGACGGCGAGAATGGCACGGCGGCCATCACCTTCTCCGGCTACGGGAACGCAGAGGTGGTGCCACTGCAGAACCTCAAGCCTGCCGAGGAGGGCAAGCACTCTGAGGATGACGGGAAATCCAAGTCCAGGAAGGAGCAGATAGCAGACCAGAGGGAGTACAAGAAGAAGAAGGCCCAGAAGAAGGTGCTGAGGATGAAGGAACTGGAACAGGAGCGAGAAGACCAGAAATCCAAGTGGCAGAGTTTTAACAACAAGGCCTATAACAAGAACAAGAAAGGACAGGTGAAGAGGAGTATATTTGCATCGCCGGAGAGTGTAAACGGCAAGGTGGGAGTAGGAACATGTGGCATAGCAGACAAACCCATGACCACGTATCACGACACATCCAAATATAACGTCAGGCATCTAATGCCACAGTGACCTAACATTTTATCTTTGTGTAAAAGTATCCTATTGTATAGTAGCAAGATCATTGCTTATCTTTGTGTGTTTATGGTTTGGGTTACCCCAGTAAAGGAGCTTTGAAACAAATTGCTTGCTCACCATTGGTTGCCTCATTGGGAAATTGTCCTTACCAGTATTATCACATAGAACAGCAGAATtcttaataaaataaataaccaCTGTAAATGGAGTTGCAGCACAAATAATGGTTGTGGTGAAATTAGTCTGGGTTGCTGTATCCTTCTGAATGCAACAAAGGCCAAAAAACTATTTCCATGTTTTTAATGTTACACATTTATTATAGATTTTTCAGGTTGAACTAGACTATAATATACATTTTTACGGTTTAGTGATAAGACCCTTTTTTAAAGCAAGTAATATAAAGCTAATTTTACATCTCAGTTTTGTACATTTACAGGGAAACAAATTGTTTTTTGTTTAGAGGTAAGATGTTCCTCTCATTTTTCCCTGAACCCTGAATTTTTCATATTGGTACTGAATGTTGTTTAACACAGTTCCTCCAGATGGCAGTAATGTATTTTATACCGTCTTTGTTCTGTGACGTATGTCAATGACCTTATGCCACTGCTGGTGATATAagctttttttaaaataaaatcagGGATGAGTTGTGGATTTTCCTATTAAACCTTCATGTTTGA
>XM_021580527.2
GACCGACACACTGGAGGCAATTTCCGAACGTACCCTATGAGTTACAGTCAGTTGACCTTTACAGTGAATTCGTTAGGATGTCGATTCAAATACCAATTGTCCATTTTAAGTACCAGGGACATAATTTATTGGGATAAAGCCCCATCTGCTGACAATGAGCGAAATTACACTTTGGCAGACTACTATCGCGAGAATAACATGTTATAAGAAATAATCGACATTTCCGGTTTATTTTTTAGATATTTATTTTTGCTGATTTATGAGAACCTATTTCAGTAAAATCTGAATATTCTTATTTATTCAGTTGAAACAAATACAGAAAGATGTCAGAGGATTTGTTGAAACAGTTGGGCAGCTACAAAGCACAGTTGCAACAAGTGGAAGCCGCCTTATCAACCGACCCTGAAAATGAAGACCTTCTCAAATTACAGAAAGACTTATCGGAAGTCATAGACTTAACAAAAGACCTCCTGACGTCGCAGCCCTCCGAAGGTACTGCTACTGCCAACAGCTCAGATGCAGCCCCCCTGAAACATAGGTGGAGCGTTGGGGACAGGTGTATGACTGTGTGGAGTCAGGATGGACAGGTGTATGAAGCTGAGATTGAGGAGATAGACGGCGAGAATGGCACGGCGGCCATCACCTTCTCCGGCTACGGGAACGCAGAGGTGGTGCCACTGCAGAACCTCAAGCCTGCCGAGGAGGGCAAGCACTCTGAGGATGACGGGAAATCCAAGTCCAGGAAGGAGCAGATAGCAGACCAGAGGGAGTACAAGAAGAAGAAGGCCCAGAAGAAGGTGCTGAGGATGAAGGAACTGGAACAGGAGCGAGAAGACCAGAAATCCAAGTGGCAGAGTTTTAACAACAAGGCCTATAACAAGAACAAGAAAGGACAGGTGAAGAGGAGTATATTTGCATCGCCGGAGAGTGTAAACGGCAAGGTGGGAGTAGGAACATGTGGCATAGCAGACAAACCCATGACCACGTATCACGACACATCCAAATATAACGTCAGGCATCTAATGCCACAGTGACCTAACATTTTATCTTTGTGTAAAAGTATCCTATTGTATAGTAGCAAGATCATTGCTTATCTTTGTGTGTTTATGGTTTGGGTTACCCCAGTAAAGGAGCTTTGAAACAAATTGCTTGCTCACCATTGGTTGCCTCATTGGGAAATTGTCCTTACCAGTATTATCACATAGAACAGCAGAATtcttaataaaataaataaccaCTGTAAATGGAGTTGCAGCACAAATAATGGTTGTGGTGAAATTAGTCTGGGTTGCTGTATCCTTCTGAATGCAACAAAGGCCAAAAAACTATTTCCATGTTTTTAATGTTACACATTTATTATAGATTTTTCAGGTTGAACTAGACTATAATATACATTTTTACGGTTTAGTGATAAGACCCTTTTTTAAAGCAAGTAATATAAAGCTAATTTTACATCTCAGTTTTGTACATTTACAGGGAAACAAATTGTTTTTTGTTTAGAGGTAAGATGTTCCTCTCATTTTTCCCTGAACCCTGAATTTTTCATATTGGTACTGAATGTTGTTTAACACAGTTCCTCCAGATGGCAGTAATGTATTTTATACCGTCTTTGTTCTGTGACGTATGTCAATGACCTTATGCCACTGCTGGTGATATAagctttttttaaaataaaatcagGGATGAGTTGTGGATTTTCCTATTAAACCTTCATGTTTGA
>XM_021580528.2
GGAAACAGCCTGACCACCTCTAGGATGTCAGAGGATTTGTTGAAACAGTTGGGCAGCTACAAAGCACAGTTGCAACAAGTGGAAGCCGCCTTATCAACCGACCCTGAAAATGAAGACCTTCTCAAATTACAGAAAGACTTATCGGAAGTCATAGACTTAACAAAAGACCTCCTGACGTCGCAGCCCTCCGAAGGTACTGCTACTGCCAACAGCTCAGATGCAGCCCCCCTGAAACATAGGTGGAGCGTTGGGGACAGGTGTATGACTGTGTGGAGTCAGGATGGACAGGTGTATGAAGCTGAGATTGAGGAGATAGACGGCGAGAATGGCACGGCGGCCATCACCTTCTCCGGCTACGGGAACGCAGAGGTGGTGCCACTGCAGAACCTCAAGCCTGCCGAGGAGGGCAAGCACTCTGAGGATGACGGGAAATCCAAGTCCAGGAAGGAGCAGATAGCAGACCAGAGGGAGTACAAGAAGAAGAAGGCCCAGAAGAAGGTGCTGAGGATGAAGGAACTGGAACAGGAGCGAGAAGACCAGAAATCCAAGTGGCAGAGTTTTAACAACAAGGCCTATAACAAGAACAAGAAAGGACAGGTGAAGAGGAGTATATTTGCATCGCCGGAGAGTGTAAACGGCAAGGTGGGAGTAGGAACATGTGGCATAGCAGACAAACCCATGACCACGTATCACGACACATCCAAATATAACGTCAGGCATCTAATGCCACAGTGACCTAACATTTTATCTTTGTGTAAAAGTATCCTATTGTATAGTAGCAAGATCATTGCTTATCTTTGTGTGTTTATGGTTTGGGTTACCCCAGTAAAGGAGCTTTGAAACAAATTGCTTGCTCACCATTGGTTGCCTCATTGGGAAATTGTCCTTACCAGTATTATCACATAGAACAGCAGAATtcttaataaaataaataaccaCTGTAAATGGAGTTGCAGCACAAATAATGGTTGTGGTGAAATTAGTCTGGGTTGCTGTATCCTTCTGAATGCAACAAAGGCCAAAAAACTATTTCCATGTTTTTAATGTTACACATTTATTATAGATTTTTCAGGTTGAACTAGACTATAATATACATTTTTACGGTTTAGTGATAAGACCCTTTTTTAAAGCAAGTAATATAAAGCTAATTTTACATCTCAGTTTTGTACATTTACAGGGAAACAAATTGTTTTTTGTTTAGAGGTAAGATGTTCCTCTCATTTTTCCCTGAACCCTGAATTTTTCATATTGGTACTGAATGTTGTTTAACACAGTTCCTCCAGATGGCAGTAATGTATTTTATACCGTCTTTGTTCTGTGACGTATGTCAATGACCTTATGCCACTGCTGGTGATATAagctttttttaaaataaaatcagGGATGAGTTGTGGATTTTCCTATTAAACCTTCATGTTTGA

Function

symbol description
smndc1 Predicted to enable RNA binding activity. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in Cajal body; cytoplasm; and nuclear speck. Predicted to be part of spliceosomal complex. Predicted to be active in nucleus. Orthologous to human SMNDC1 (survival motor neuron domain containing 1).

NR:

description
survival of motor neuron-related-splicing factor 30-like

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003723 RNA binding molecular_function

KEGG:

id description
K12839 SMNDC1, SPF30; survival of motor neuron-related-splicing factor 30

RNA

RNA id representative length rna type GC content exon number start site end site
XM_021580529.2 False 1754 mRNA 0.44 6 24754565 24765657
XM_036960138.1 False 1707 mRNA 0.44 6 24754565 24765658
XM_021580527.2 False 1720 mRNA 0.41 6 24754565 24766538
XM_021580528.2 True 1421 mRNA 0.42 6 24754565 24766770

Neighbor

gene id symbol gene type direction distance location
LOC110502477 LOC106608714 coding downstream 123984 24520546 ~ 24630581 (-)
LOC110502475 LOC106607228 coding downstream 393350 24292899 ~ 24361215 (-)
gsto1 gsto1 coding downstream 570624 24174161 ~ 24183941 (-)
LOC118943923 NA coding downstream 636885 24075852 ~ 24117680 (-)
LOC110503092 NA coding downstream 682076 24058972 ~ 24072489 (-)
LOC110502483 LOC106607298 coding upstream 40203 24806973 ~ 24813358 (-)
LOC118943844 NA coding upstream 73139 24839909 ~ 24846204 (-)
gnrh1 gnrh1 coding upstream 360841 25127611 ~ 25128951 (-)
LOC110502487 LOC106607391 coding upstream 364486 25131256 ~ 25192325 (-)
LOC110503059 NA coding upstream 650594 25417364 ~ 25418599 (-)
G1845988 NA non-coding downstream 1721 24751032 ~ 24752844 (-)
G1845784 NA non-coding downstream 131872 24614539 ~ 24622693 (-)
G1845627 NA non-coding downstream 350673 24394066 ~ 24403892 (-)
G1845501 NA non-coding downstream 559313 24194755 ~ 24195252 (-)
G1846027 NA non-coding upstream 52532 24819302 ~ 24820076 (-)
G1846045 NA non-coding upstream 69828 24836598 ~ 24837797 (-)
G1846126 LOC106577027 non-coding upstream 118960 24885730 ~ 24889515 (-)
G1846180 NA non-coding upstream 181810 24948580 ~ 24948779 (-)
G1846283 NA non-coding upstream 256529 25023299 ~ 25023511 (-)
LOC110502462 LOC106607169 other downstream 1408794 23344353 ~ 23358461 (-)
G1843946 NA other downstream 1521142 23182987 ~ 23233423 (-)
LOC110502461 LOC106607165 other downstream 1536295 23213905 ~ 23218749 (-)
G1841959 NA other downstream 3382766 21345514 ~ 21371799 (-)
G1841694 NA other downstream 3810950 20943307 ~ 20943615 (-)
G1846858 NA other upstream 673037 25439807 ~ 25440387 (-)
G1850441 NA other upstream 3308155 28074925 ~ 28078251 (-)
LOC110502553 NA other upstream 4157969 28919846 ~ 28932600 (-)
LOC110502574 LOC106608078 other upstream 6384839 31151609 ~ 31239202 (-)
G1854905 NA other upstream 6450827 31217597 ~ 31218171 (-)

Expression


Co-expression Network