AMCG00018517 (shmt1,LOC107674655,LOC107581728,LOC107737723,LOC107720052,LOC108257064)


Basic Information

Item Value
gene id AMCG00018517
gene name shmt1,LOC107674655,LOC107581728,LOC107737723,LOC107720052,LOC108257064
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030135.1
NCBI id CM030135.1
chromosome length 28454832
location 13214592 ~ 13223710 (-)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00018517
GAGTGCGCTAAACTGCAACATGTGACATATCAAATCATTACAGCAATATTTGTTGGGTTAGAACAATTAGTCTTAAAGTTTGGTACCATGTGTATAGGACATGCAGCTGGTAATCAGTTCACCTACAGTTCACAATTGAAAGGCTTTCTTCTCGTATAACTTGTTTGGTTCTATAAATCCTGAgaacataattacatttccGTCTACACGACCTTCAGTTCAAGCTAAAACTGGTTGATCTTTACTACCTGTCTTGTCTGATCCCTGATCGCTGCCTCGTCTGTCAGGCGTGCATGTCTGAGCTAATCATTTACCTTCTGTTAATTGGCCAGACAAGTCATACGGTTTCACAATTGCTTCATCTTTAAACAGTCATTTCACTATTTGATCTTTGAGCTTGTCTTGTTTTGGCAAAAAATTAAACTTCCAACAATGTGTTAGTATTACCCCTTTGCAGCTGGTGTGGGGGCCGCTGAATTACAGAGGTAGGCCTGCTTGTTTCGTTCATTTTACAGAGTGATCTTCATACATCTTagtatttttgtgcatttgaaatttaattgacaataataatatatctagCCCCTGATATTTGCTCATGTGTAGAAACGTGTAGCTTTTACAACCTGGGACAACTCACAGAGGTCTGGAATGGGAGTCTTATTTGTATGCCTGCTTTATCCTTTTTTCATATAAGGAAAATATCTACCTGATTGCAAGCAGCCATGGCTCAGAGTAATGGAGACCACCAGAGCAAAGACACCTGGGATTCCCACAACAGAATGATGCTGGAGCCCCTGAGCACCAATGATGTGGAGGTGTTTGACATcataaagaaagagaagaaaaggcaGACCTATGGGTTAGAGCTCATCGCCTCTGAGAATTTCACTAGCAGGGCCGTGCTAGAGGCCCTCGGCTCCTGTATGAATAATAAGTACTCAGAGGGATACCCTGGACAAAGGTACTATGGAGGCACAGAATTTGTGGATGAACTGGAGCGACTGTGTCAGAGGAGAGCTCTGGAGGTGTATGGCCTGGATCCTGAGAAGTGGGGGGTCAATGTCCAGCCATACTCTGGATCCCCTGCTAACTTTGCCGTTTACACCGGGCTTGTGGAGCCTCACGGGAGGATCATGGGACTTGACCTGCCAGACGGCGGTCACCTGACCCACGGGTTCATGACggacaaaaagaaaatctcGGCTACTTCCATTTTCTTTGAGTCAATGCCATACAAGGTTAACCAGGACACTGGTTATATAGACTATGATCGACTTGCAGAAAACGCACGACTTTTCCACCCCAGACTCATCATCGCAGGTGTCAGCTGCTACTCTCGCAACCTGGACTATGCCCGCATGAAGCAGATAGCTGATGAGAATGGTGCTTATCTCCTGGCTGACATGGCACACATCAGCGGCCTGGTGGCGGCGGGAGTGGTGCCCTCTCCATTTGAACACTGTGACGTGGtctccaccaccacacacaaGACCCTGCGTGGCTGCAGGGCTGGGGTCATCTTTTACAGAAAAGGGGTTCGCAGTGTTGATGCCAAGACTGGTAAAGAGAACCTGTACAATCTGGAGGGCCTGATCAATCAGGCTGTGTTCCCTGGGCTGCAGGGTGGGCCGCACAACCACGCGATTGCAGGGGTGGCTGTGGCTCTGAAGCAGGCGTTAACCCCGGAGTTCAAGGTCTATCAGATACAGGTTCTGGCAAATTGCAAAGCTATGGCAGCCACACTGACCGAGCTGGGATATCGAATTGTTACAGGAGATAAAAGTGCCTTGCGCCCCAGTGGCATAAGACTGGGATCCCCAGCTCTCACATCCAGAGGCTTTGTGGAAGATGATTTCCGCAAAGTGGCCGAGTTTATCCACAGAGGCATTCTGCTGACAGTTGAGATTCAGAAGGATATGAACCCCAAGGCCACACTGAAGGAGTTTAAGGACAAGCTGGCACAAGATGAGAAATACCAAACGAAAATCAAACGGATCCGTGAAGAGGTGGAAGCCTTTGCCGGAAGATTTCCAATGCCTGGATTGCCGGATTTGTAAACTATCAGATTTGTAGGTCTGGCAGAATCTAGATATTGTCCTTTAGTGGGTTTAGTGAACAGGAAACCTCTAAAAGGCCAAATTCAACTTTTACTTCACACTTCAGTAAAAGTTAAGGATAGTAGGTGGAAGACACATTTACTATCACCCTTGATTTTCTTGGCATAATTCATTTCCTGAATATACAACATTCTGTGTCTTTTTCCATGTTTTGCTCCACCCCTCTAAGTTTACATTAAGCttaaattatgaatgcatttcatGAATTTGGaaaaatggttttaaacatCTGCTAGAAGCATTCTGACTTGAAAGGATATtgtattaagttttttttttttttttttgcctgtgtGAAGGCACATCTGTGAGAACCAAAagcaaaatgcatatttttaaaatattaacttttctCGTACATCttgttgatattttatttagtatgttAAAGATTGTTACTGCAACAATGTATTCATGACCAGAgtgtacatttgaaatgttgcaTACATTTCGATGTGTAGAGATTCACAAGCAATGCTTTGTGTAAACTGCTTAACATGCCAGTGATTTTTGGAAGCTTTAATAAAA

Function

symbol description
shmt1 Enables glycine hydroxymethyltransferase activity. Predicted to be involved in several processes, including L-serine metabolic process; folic acid-containing compound metabolic process; and protein homotetramerization. Predicted to act upstream of or within methylation. Located in cytosol and nucleus. Is expressed in several structures, including digestive system; immature eye; midbrain; neural tube; and oocyte. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human SHMT1 (serine hydroxymethyltransferase 1).

NR:

description
PREDICTED: serine hydroxymethyltransferase, cytosolic

GO:

id name namespace
GO:0006544 glycine metabolic process biological_process
GO:0006563 L-serine metabolic process biological_process
GO:0032259 methylation biological_process
GO:0035999 tetrahydrofolate interconversion biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0008168 methyltransferase activity molecular_function
GO:0030170 pyridoxal phosphate binding molecular_function
GO:0004372 glycine hydroxymethyltransferase activity molecular_function

KEGG:

id description
K00600 glyA, SHMT; glycine hydroxymethyltransferase

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00018517 True 2648 mRNA 0.44 10 13214592 13223710

Neighbor

gene id symbol gene type direction distance location
AMCG00018519 NA coding downstream 1997 13203693 ~ 13212595 (-)
AMCG00018512 LOC107674657,LOC107592418,LOC107737959 coding downstream 26843 13160357 ~ 13187749 (-)
AMCG00018513 flii,LOC107703428,LOC107674686 coding downstream 54747 13138873 ~ 13159845 (-)
AMCG00018504 LOC107592748 coding downstream 280154 12929748 ~ 12934438 (-)
AMCG00018505 NA coding downstream 291125 12914014 ~ 12923467 (-)
AMCG00018518 NA coding upstream 3441 13227151 ~ 13234684 (-)
AMCG00018521 NA coding upstream 15100 13238810 ~ 13245731 (-)
AMCG00018524 NA coding upstream 348656 13572366 ~ 13578310 (-)
AMCG00018525 actb,LOC102799139,LOC103365100,LOC102299797 coding upstream 359394 13583104 ~ 13587070 (-)
AMCG00018529 NA coding upstream 520279 13743989 ~ 13745104 (-)
G116784 NA non-coding downstream 167999 12989436 ~ 13046593 (-)
G116750 NA non-coding downstream 330170 12879665 ~ 12884422 (-)
G116749 NA non-coding downstream 337829 12874915 ~ 12876763 (-)
G116672 NA non-coding downstream 915881 12295461 ~ 12298711 (-)
G116619 NA non-coding downstream 1093985 12119808 ~ 12120607 (-)
G116875 slc29a4,LOC108430547,LOC107104199 non-coding upstream 107181 13330891 ~ 13342748 (-)
G116883 NA non-coding upstream 142864 13366574 ~ 13367055 (-)
G116918 NA non-coding upstream 277008 13500718 ~ 13502497 (-)
G116931 NA non-coding upstream 304986 13528696 ~ 13534836 (-)
G116949 NA non-coding upstream 396513 13620223 ~ 13620432 (-)
AMCG00018490 NA other downstream 924048 12287568 ~ 12290544 (-)
G116577 NA other downstream 1303256 11911014 ~ 11911336 (-)
G116428 NA other downstream 2011704 11199578 ~ 11202888 (-)
AMCG00018440 NA other downstream 2067652 11088174 ~ 11146940 (-)
AMCG00018437 srebf1,LOC107713935 other downstream 2130812 11061628 ~ 11083780 (-)
AMCG00018522 NA other upstream 29375 13253085 ~ 13257250 (-)
AMCG00018528 LOC104956910,LOC107742399,LOC107591749,LOC106595856 other upstream 421658 13645368 ~ 13727870 (-)
AMCG00018555 LOC107689851 other upstream 1018835 14242545 ~ 14263154 (-)
G117267 ywhag,143g1,ywhag1,LOC106603950,LOC108233911,LOC107387033 other upstream 1279693 14503403 ~ 14520875 (-)
G117377 NA other upstream 1512428 14736138 ~ 14738312 (-)

Expression


Co-expression Network