smchd1 (smchd1)


Basic Information

Item Value
gene id smchd1
gene name smchd1
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048579.1
NCBI id CM023233.2
chromosome length 81569517
location 28337647 ~ 28377476 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_036944232.1
CATTGCGCATACTCACGACTTCTTTCACCTGAAGAAGAAACATGGCAGAGTCGGAAGGTGTGACAACGTCTGCTGTTGCCAATAGCAATAGAACACACATTTCACAGAGTAAAAATGGAGTTAACGGGTCAGATAAACCACATAAAAGTGTGGTAATATTCGACTGTCGTCCGGAAAGACACGACGCAATGGAGAGAGTTCTGGACATAAATGGCTTGGACTTCAACGACTTCCTTCAAGTTGTATCGaagGAATTTGCCATTCCTTCCAACGAAACGTTTGTCTTGACAACAACGGACAGAAAAGGAATAGATTTTGACAGATATGAGAATCTTCAACAAGGAAACACTCTCCACCTGTTGCAGACCGAGGACCAGATCCTGCCCGTGGCAACTAAGGAACACATTGTGTTTCTCCCTCACTATGACACACTGGTCCAGAGTGGCATGTATGAGTACTACGCTAGTGAGGGCCAGAATTCTTTACcgtATGCCTTTGCAGAACTAATCGACAATGCACTGTCAGCTACATCGCACAACACAGGAGTGAGGACCATAGACATCCGATTGCTGTTTGATGAGTCCTTGGGGAAACATGCAGTGGTTATCATGGACAATGGCTGTGGAATGACCTCCAAACAGCTTAATAACTGGGCTGTGTACAGGCTCTCCAAATTCAGCAGGGAAAGCGGCATGTTTTCAAGTGATCATGCAGGGTATGTTCGCCCTGATCCAGTCGCTCGCAGTCTCAACAGTGATATATCATATTTTGGAGTAGGAGGGAAACAAGCAGTGTTCTACATTGGACAGTCAACCAGGATGATCACCAAACCAGCGGGCTCCCCAGATGTCCATGAACTCATCATTTCAAAAGAAGAATTTGAGAGGAAGGAGCGGAACAAGGAAGATATTTACAGTGGTTTCATCAGAAACCGGAAGATGGCTGACTCGTCCCACGTGAGAGACGACGAGGAGCGCTTCCTCCATGGGCTGATCGCTGAGGAGGTGGGAAAGGACAGCTTCACGGCCGTGGTGGTTACGGGAATCCAGCCTGAACATGTCACCTTCCTCAAGCAGGACTTCCACCTGTGGACCAGAGAACTGGCCCACTTGTATCACTACTACATTCACGGCCTAAATGGGAATGACATGAAAGCCTCCTACCGAAACTCTGATTGTGTTTCCAACATTGACATTCAGATCTCTCTGCTGGAGAAGTTCCCCAAGATCCCTCGCATGGTGAACCTCCGAGAGATCGACAACGACATGCAGACGCTCTACATCAACACGTCGGCTGACACATTCGAGTTCAAGGCCTGCACAGACGTTGACGGAATAGTGGAGGGGATCCTGAGGTACCACCCCTTCCTCTATGACAGGGAGACCTACCCCGAAGACCCCTATGCCATACCAGCTACGGAAGAGGATGATGACAGTATCGTCCTGAACCAGGCCAGGGGGAAGAGGCCCATATTTGAGTGTTTTTGGAATGGACGTCTCATCCCATACACCACTGTATCCGAGTTTGATTGGTGCGCATGGCCAAAGAAGACAGGGACAGTGCCTGCAGAGTGTTACAGCAGGTTCTCAGGGGTGCTGTTCACCAATGACAGGTTCCAGGTCAGCACCAATAAGCTCACTTTCATGGACCTGGAGCTGCAGCTAAAGAATAAGGAGACCTTATTCACCCGCATTGTCAATGGCCAGGAACAAAGGGTTAAAATCCATAAGGAGTTTCACCAGTGGCTGAAGACCTGCCACGAGAAGTGGGACAAGCAAGTAAAGTTCAGAGGCTTCAAGAGAACCATCACACGAACAGACGTGACCACAAAGAAGATGCAATCTCCTTGGGCTACCTTCTCCTCCATCGAGTGGGACGGTAGAGCGTACAAAGCTGGTCAATACGTGAAGTCTCAGAAAACACAGCCCATCTTCTTTGGCTCCGTTATTCAGTTCCTACTGTATGGCGATCACGAGGGAGATGTCTACGCCACAGGAGGGCAGGTGCAGGTGGCCATGGAACCAAAGGCGCTGTACGATGACATCAAGACAATACCCATCTCCAAAATCGACAGGGTGATTACCAATGCAGCCATCAAGAAGAGCATTGATGACGAACTAGCCAAactcccagacaagctaaaaGTGACCTGGCCAGAGGGCAACCCCTGGACCCAGAACGATGTTCGGCCAGCAGGCACTCCACTAGGACCTCTCCATGTGGAAATTCTCAACAAGAAAGGAGAGTCAATATCCAGGATACCATCAGCCATGCAAAACACAACACGGAAAGCACTTTCGATCGAACTAAAAGTTGTTTGGCATTcACCTAATGGTGATGTGGAGACCAACTCTCACATTGCAGCACATTCGGCCAAGTGGGCATTCTGGTTCAGAACCATggAGAACCTGAACAAGCTGGGGAAGTACACTCTGCACCTGAACACAATACTCAATGTCAATGAGAGCAACGCTACCGTCTGGGCTGGGAATCGGCTTCCCAACCACACACTGGACTTCTCCATTACTGagGGCAGTGCAGAGAGGTTTGTGGTGGGCACAGTGAACACCCTGCTCCATGTGGGGGTGCCTTTCCACATCCCACTGGAGCTGCTGGATGAATACGGTCACCCTGCTCGCCCCCCTCCCAACCTCAAGCCCCTCCTGGAATGCAGTGCCCTGGAAGTGAGTTACGAGGGGGTGACCGCTAGGGGGACCATTTTGACCATCCGAGGCGTCAGAGCCAGGGGGGCGGTGCAGCACTACCAGAGCAAGACGCACGACTTGAAAGTGGTACTGCCTGGCCTCAAACAGGACTCGCAGACTCTGAAGATCAGCCTTCTCCCTGGTAACCCAGATTCACTGAAAGTGAAACAAGAGGATCCAATCACTGTGGAGAATGGAACTTCGGTTAGCTTTGATGTGGAGGTCCATGACGTAGCAGGAAACGTCACAGCTCACCCCAAACTGATCATCAGCTGCCAGTTGCAGGGGATCCCTGGTTCGACCTCCATGGTGGCTGTAGACTGCAGTAACACAGGAGCCGGGACCCTGGTGCTAAAACCAATCACCTTCAAAAACATTGCGGGAGACCAGACGGTTAAAGCTACATTTGATATTCCTAGTCAGAAGAGTGTAGCTCCAGTCCAGAGGGATCTGAGGGTTGTCCCCAGCACCCGTGTGTCACGTCTCGAGGTGTACAGTCAGGAGGACGAGGACAGCCTGGTGGACTCCATGGTGCTTAGGGACAAGGAAAAGATAGACTGGACTGCAGGGGACCTCCTGGAGAACCTCCATTATAGACTGTATGACGAGAGAGGCAGGGTGGTCCCTCTGTCTGAGGAGATGGCCCGGAGGATCAAGGTGAACTGGGCGGCTGACGTGAGTGTGGAGGAGCTGGCTCAGGGGAAGCTGCCCAACGTGCCTGTCCCGACGCTGGTGAAGGAGGAGCACTTCTACCAGGTCTCCTACATGGAGGAGCTGGTGTCTGTCGACACCTCCTTCACTATAGTGCCCCGCCCCGACGAGCCGAAACACATGAAAGCCACCCTGAGCGAGTCGACCGTGAGGATGGGAGAGGTCCTATCAGGAAAGATCTTCTTACAGCTTACAGACCAGTATGGTAATAAAACTCAGATGCTGACCGCGACCTGTGTGGACTCTCTCGCCGTGGATGCCGAGGGTCTTGACAAAGCATCCCTGGTCTTTACCTGGCAGGAGAGCACCCACTCCATGTTAGTGACAGGGGTGCGGTTCAACCCTGGGTTCCCAGGCATCAGAGAGCTGAACTTCACCTGGAGGGACTTTGCGGAGCATGTGACAATTAAATTGACGGCTGGGGTCCCTGCACAGCTCAAACTAGTGGACGGACCACAAGAGCCCCTGCAGGTACTGAATGAGCAGGGCATCCAGACGCCCTTCCTCCTCCAGCTGTTTGACGAGTGGGGGAACCCCTCTCCTGACCAGAGGGTTGTGGTGACACTGAAGACTTCCACTCCAGCTCTAAAGGTGAAGTCACCCGTTAATTCACAACCGATAGACAAAGATGGAAAAGCCAGTTTCGTAGTAGACCATGTGAGCGGTCCAAAGGGGGAGTATGCGCTGGAGTTCAGAGGGTCCTTCAACAAGAAGCCCATCCACGGTCCAGCCGTAAAGCTTACCATTATCCCCGATCCTAACAAACCTGTCAAACTGGTGGTGGAGTACAACACAAACTCAGTGTTTCCTGCTGGAGGCACCCTCACAGTGTTTTCAGTGTCTGTGGTGTCGGAGGAGGGCAGCACCATCAAGAACCTCAACCCTGCCAACATGTCCATGCTGTTGTGGAAGGGAGAGCCGTCAGGGACGTCAAGGCCCCCCTCAGGGGCTGCCCAACTGAAATGCAGCAAACCCATGGAAGATGAAAAGGCGAACAGTTTTCACTTCAGAGACAAAGTCATCCCAGACCATGTCGGGAAGTACACCATCCAGTTTGTGCTGTGTGTTGACAAGACTAAAGGGCTGTGGAGTCACCAGTATGTCATAAATGTTGTACCCAACGACCCTGTCAAATTGGCCCCAGACCTGCAGCCACCAACCCCAGTGGTGGTTAACAACAACGTCCTTGACAGTCGGACTCTGGTGGAGGACATGTCTCTGAAATTAATGGATATGTATAATAACTCAGCGGGGCTGGAGCTGAGTGGGAAAGTGGTGGTGACTATTAAGAGCTCCAAAGGCTCCAGTGACAAAAATCTGCCTCTCTTTGAGGGCAAAGTCAAGAGCCTGCAGTTTAGCCTGGCTAATGGAGAGGCCCAAATCACTAATCTGTTCATCATGGAGAACAGTCCTGGTCAGGATGGGAATGAGTACGTCTTGCTCTTCAGACCTTCGGTCCCAGGGTATGGCCCCAAAAATCCCCTGGCAGCGTTTGAGCTTCCCTTCCGCTTCTACAACGATGTGGAAAACAGGAAGCAGATGTCTGAATTGACCAAGAAGAAGGACCAGCTCAAACAGACCGTTGATATCTACAGGAGTCTGTTTGACACCAACAGGCAACTCATCACTGAGCTCAGTAATCAGGTGCGCAACGCCACCAACAAGGAGAGTCACTTGAAATCCGAGCTCGGGAAGAATGGCATGGCTGTAGCACAACTGTCGTCCATCCCAGCGATCGACAAAGTCATCAGTCAGAAGACGGCTGACGCGGAGAAGATGAAACTCCAGACGCGGAGAGTCTGCGCCATGCCCGATCCCTTCAGGGGCAACCTTGACGTCCTGGGAAAAATTGGCCACCTGGCGCTGGTGGAGGACGATGACGTGGCCACGGTCATCTCCTGGCACCTCTTGGGGGACATTGACTGTGTGGTCACCATGACAACGGCGGCGGCACGGAAGATCTATGACGACACCCAGGGGAAGCAGCAGGTCATGCCCCTGGACACGGTGTTCTGGAGGAAGAACAGCAGCAGACCCTTGCCCCATATAAGGAACGGTCAGGACAGCTTTCGTCCCATTGGGAACCCTGTGTTTGCCCGAGACCTCCTCATTTTCCCAGAGAATGCAGAGAACTGCCACATAGTGTTCGGCAACCTCCTTGGAGACACCATTTTGACGGATGACCTGGACTCTGCTAACCACTACAGGAAGGGGGTGGTCCAGAGCAAGGTGCCATGCCCCACCCTCCTGACTCGGCAGGGCGATAGGATCCGCAGCAACGGCAAGTTTGGGGGCTTGCAGAACAAAGCCCCTCCAATAGAGAGACTGCGTGGCCAGGTGTTCGGCGCACCCCTCCCCAAGGACTACCACACCTTTATGGGCCAGATTGACCTGCTCCAGCAGTACCGGTTGGCCATGGAAAAGAGCAGACAGGTGCAGGAGGACTTTGACAGCCACATGCAATACCTGAAGTCACCTGAAATGGTGCAGAAAGAAGAGGAGATGGATGAGCAGGAGAAGCAGCTCAAAGACATCGAGACAAAGCTTGCCAGTACTCCAGTTCGGACGCCTTCCGCCATTGGGGTGAAACGGAGTCTTGACAAGGCCGGAGAATCGTCCGGTATGGTAACCAAGAGGACGAGGCGGAAGTTATTAAAACAAGACTATTGATTTCCCTTTTTTTGAGCAACATAAATGTCAGTTTTCAATTCCATTTGACATGTACAGCAGAGTTGTACCATGCCATCTACATCATGTCTGAGTCTGAAGAGTTAGTCTCTTCATGCATTTTCATTCATTTGTTCAGCAGGTTggtgttttttttacacatttaaaCGTAGATGGCAGCAATATGAAGCGACTGGTATTTAGATGAACTTTATTTCTTTTTGTCCAGCTTACAATTAACTGTGTTTTGATAGGGGAAGGTAGGTTTTGGACAATGTACaaagattattttatttttttataaaaaatattttataaattgTTTATAAATGTGTTTTCACTTAGGAATTAGGTGTGTTTGTGAAAATTCTACAAGATATGTTTTGAATGAATCCGTATTTGGCTGACTGATGCTAAAGTGACCTCAAACTATAAAAATAAAGAGTTGCACACCAT

Function

symbol description
smchd1 Predicted to enable ATP binding activity. Acts upstream of or within with a positive effect on definitive hemopoiesis. Acts upstream of or within embryonic cranial skeleton morphogenesis. Predicted to be located in chromosome. Is expressed in blood cell; caudal hematopoietic tissue; intermediate cell mass of mesoderm; and posterior lateral mesoderm. Used to study choanal atresia. Human ortholog(s) of this gene implicated in facioscapulohumeral muscular dystrophy 2. Orthologous to human SMCHD1 (structural maintenance of chromosomes flexible hinge domain containing 1).

NR:

description
unnamed protein product

GO: NA

KEGG:

id description
K23113 SMCHD1; structural maintenance of chromosomes flexible hinge domain-containing protein 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_036944232.1 True 6539 mRNA 0.51 47 28337647 28377476
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Neighbor

gene id symbol gene type direction distance location
emilin2b LOC106590142 coding downstream 1826 28316887 ~ 28335821 (-)
trnal-uag-3 NA coding downstream 28836 28308734 ~ 28308811 (-)
myl12.1 LOC106590146 coding downstream 100765 28232133 ~ 28236882 (-)
fastkd3 LOC106590147 coding downstream 105972 28227285 ~ 28231675 (-)
LOC110489929 LOC106590152 coding downstream 277064 28051643 ~ 28060583 (-)
adcyap1a paca coding upstream 181718 28559194 ~ 28565541 (-)
tyms tyms coding upstream 238991 28616467 ~ 28619751 (-)
LOC110489945 clul1 coding upstream 242362 28619838 ~ 28632520 (-)
LOC110489947 LOC106590135 coding upstream 323701 28701177 ~ 28724125 (-)
LOC118938886 prex2 coding upstream 440363 28817839 ~ 28818590 (-)
G1276912 NA non-coding downstream 43516 28292660 ~ 28294131 (-)
G1276887 LOC106590144 non-coding downstream 55831 28279627 ~ 28281816 (-)
G1276896 NA non-coding downstream 89875 28246563 ~ 28247772 (-)
G1276872 LOC106590148 non-coding downstream 123619 28200633 ~ 28214028 (-)
G1276947 NA non-coding upstream 15035 28392511 ~ 28392785 (-)
G1276948 NA non-coding upstream 16196 28393672 ~ 28393997 (-)
G1276949 NA non-coding upstream 16716 28394192 ~ 28394507 (-)
G1276950 NA non-coding upstream 18777 28396253 ~ 28396649 (-)
G1277012 NA non-coding upstream 70117 28447593 ~ 28447800 (-)
G1276905 NA other downstream 71892 28261540 ~ 28265755 (-)
G1276639 NA other downstream 246806 28090494 ~ 28090841 (-)
G1276566 NA other downstream 378213 27959052 ~ 27959434 (-)
LOC110489905 LOC106590176 other downstream 1106168 27228878 ~ 27231497 (-)
LOC110489898 LOC106590183 other downstream 1393483 26941314 ~ 26952371 (-)
G1278860 NA other upstream 1253549 29631025 ~ 29631768 (-)
dlgap1b LOC106590111 other upstream 1601699 29979175 ~ 30253803 (-)
G1281361 NA other upstream 3486758 31864234 ~ 31864636 (-)

Expression

smchd1(smchd1) Expression in all Baseline Samples

Bar chart with 20 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying values. Range: 0 to 40.
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smchd1(smchd1) Expression in each Bioproject

Bar chart with 21 bars.
smchd1(smchd1) Expression in each Sample
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 150.
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Co-expression Network