VIGGS:GBrowse

Vigan.01G208200.01

Basic Information:

Name:	Vigan.01G208200.01 Multiple alignment Variant Information
Position:	Chr01:26957604..26960424 (- strand)
Length:	2821

Functional Information:

Description:	Similar to Serine hydroxymethyltransferase. [V7C610, Phaseolus vulgaris]
GO:	Biological Process: glycine metabolic process (GO:0006544)
	Biological Process: L-serine metabolic process (GO:0006563)
	Molecular Function: catalytic activity (GO:0003824)
	Molecular Function: glycine hydroxymethyltransferase activity (GO:0004372)
	Molecular Function: pyridoxal phosphate binding (GO:0030170)
InterPro:	Serine hydroxymethyltransferase (IPR001085)
	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (IPR015421)
	Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (IPR015422)
	Pyridoxal phosphate-dependent transferase (IPR015424)
	Serine hydroxymethyltransferase, pyridoxal phosphate binding site (IPR019798)
Expression level (FPKM):	Co,Em,Fl,Le,No,Po,Ro,St:0.22,0.88,49.24,23.57,38.17,50.74,19.59,47.64
Arabidopsis thaliana homolog:	AT1G22020.1, AT1G36370.1, AT4G13890.1, AT4G13930.1, AT4G32520.1, AT4G37930.1, AT5G26780.3

Automatic updates:

Name:	KX881923 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_Forrest_WT serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881924 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_E61K(F6266) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881925 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_M125I(F6756) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881926 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_G132D(F1927) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881927 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_R257Q(F1817) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881928 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_L299F(F1336) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881929 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_N368T(F1801) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881930 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_A302V(F891) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881931 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_G71D(F427) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881932 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_G326E(F1460) serine hydroxymethyltransferase mRNA, partial cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	KX881933 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max isolate SHMT08_Essex_WT serine hydroxymethyltransferase mRNA, complete cds; chloroplast.
PubMed ID:	28461402 NCBI(pubmed)
Status:	Known Variant

Name:	NM_001368762 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max serine hydroxylmethyltransferase (SHMT), mRNA.
PubMed ID:	30728404 NCBI(pubmed)
	28912378 NCBI(pubmed)
	28461402 NCBI(pubmed)
	27392178 NCBI(pubmed)
	27458476 NCBI(pubmed)
	27323148 NCBI(pubmed)
	23235880 NCBI(pubmed)
Status:	Known Variant

Name:	NM_001368764 NCBI(nuccore)
Organism:	Glycine max
Description:	Glycine max serine hydroxylmethyltransferase (LOC100815417), mRNA.
PubMed ID:	30728404 NCBI(pubmed)
PubMed ID:	27458476 NCBI(pubmed)
Status:	Known Variant

Structure :

[show][hide]Parts:

Position:	Chr01:26957604..26958023 (- strand)
Length:	420
Type:	three_prime_UTR

Position:	Chr01:26958024..26958268 (- strand)
Length:	245
Type:	CDS

Position:	Chr01:26959036..26959137 (- strand)
Length:	102
Type:	CDS

Position:	Chr01:26959227..26960295 (- strand)
Length:	1069
Type:	CDS

Position:	Chr01:26960296..26960424 (- strand)
Length:	129
Type:	five_prime_UTR

[hide all][show all]SEQUENCES

[show][hide][copy]EXON + INTRON

[show][hide][copy]TRANSCRIPT

>Vigan.01G208200.01
CAGGCTACAA CTGTCCATTC ACATTCGCTC TTACCTTTTA AAAACACACT CACCCCGACT CAACCAACAC AACACATTCT
TCTCCTTCTT CGCTCACTCA CTGACATTCT TCGTTAATTT TCAACAATCA TGGATCCTGT GAGCGTGTGG GGGAACGCGC
CTTTGGTGAC GGTGGATCCC GAGATCCACG ACCTGATCGA AAAGGAGAAG CGTCGCCAGT GCCGCGGAAT TGAGCTGATC
GCATCGGAGA ATTTCACCTC CTTCGCGGTG ATCGAGGCCC TGGGAAGCGC CCTCACCAAC AAATACTCAG AAGGCATGCC
GGGAAATCGC TACTACGGCG GCAACGAGTT CATTGACGAG ATCGAAAACC TGTGTCGCTC ACGCGCCCTC ACCGCCTTCC
ACCTCGATGC CCAATCGTGG GGGGTCAATG TGCAGCCCTA CTCGGGCTCC CCGGCCAACT TCGCCGCGTA CACGGCGGTG
CTGAACCCCC ACGACCGCAT CATGGGGCTG GATCTGCCCT CTGGCGGTCA CCTCACCCAC GGGTACTACA CCTCCGGCGG
GAAGAAGATC TCTGCCACCT CAATATACTT CGAGAGCCTC CCGTACAAGG TGAACTCCAC CACGGGGTTC ATTGACTACG
ACCGATTGGA GGAGAAGGCG CTGGACTTCA GGCCCAAGAT GATAATCTGC GGCGGAAGCG CCTACCCTCG CGACTGGGAC
TACAAACGCT TCCGGGCAAT CGCGGACATG TGCGGCGCAC TGCTCCTCTG CGACATGGCG CACATTAGTG GCCTTGTGGC
CGCGCAGGAA GCGAACAACC CCTTCGAATT TTGCGACATT GTCACCACCA CGACGCATAA GAGCTTGCGC GGTCCCAGGG
CGGGCATGAT CTTCTACCGG AAGGGTCCGA AGCCGCCCAA GAAGGGGCAG CCAGAGAACG CCGTTTATGA ATTCGAGGAC
AAAATCAACT TCGCCGTTTT CCCTTCTCTC CAGGGTGGTC CTCACAACCA CCAGATTGGG GCCCTCGCCG TGGCACTGAA
ACAGGCCGCG ACGCCTGGGT TCAAGGCCTA CGCCAAGCAG GTGAAGGCCA ACGCCGCTGC GCTCGGCAAG TTCTTGATGG
GGAAAGGGTA CAGTCTCGTC ACCGGTGGAA CGGAGAACCA TCTTGTCTTG TGGGATCTCA GACCTCTTGG ATTGACTGGG
AACAAGGTGG AGAAACTTTG TGATCTCTGC AACATTACCG TCAATAAGAA TGCTGTTTTT GGTGACAGCA GTGCGTTGGC
CCCCGGGGGT GTACGAATTG GTGCCCCTGC CATGACTTCT AGGGGTTTGG TTGAAAAGGA CTTTGAGCAG ATTGGTGAGT
TCCTTCACCG TGCCGTGACT CTCACACTAG ATATCCAGAA GGAATATGGC AAACTTCTAA AGGAGTTCAG CAAGGGCCTC
GTCGACAACA AGGCTATTGA AGATCTCAAA TCTGATGTTG AGAAGTTCTC TGCCGCGTAT GGCATGCCCG GTTTCCTGGT
ATCTGAAATG AAGTACAAGA ATTAGATTCA TTCATACAAC TTTCCACTGT CATTCAAAGT CCAGCACAAA GTGCACAAGT
AGAGAAAATG GAAATAAGTT TCATTCGTTT TGGGAGTGAT GATGGGTTTA TAGAGATGGT GTTTCAATTG AGAAGTTTAA
AGTATCTTTC TTTTTTGTAT TCACGTTTAA TTTTTTAGCC TGATTAATAT CATATTTTTT CTCATTAAAA AAATCCAAAT
AATACATGTG CTGTCGTACT TTTTTTCTAA ATGTTTCATG ATTTCTCTTC AAATTTTGCT CTAGTGAACA CCATAACAGG
ATGAGTTTTA ATCGAGTTAG GCGAGAAGTT TGAGGTTTGC TTCTATCGTA GTTTCAAACT AAGCCCTATT ACTATTTGGT
TGACAAATGT ATCCAAATGA TGTATCTATG TATTATGCCT CCAAT

[show][hide][copy]CDS

>Vigan.01G208200.01
ATGGATCCTG TGAGCGTGTG GGGGAACGCG CCTTTGGTGA CGGTGGATCC CGAGATCCAC GACCTGATCG AAAAGGAGAA
GCGTCGCCAG TGCCGCGGAA TTGAGCTGAT CGCATCGGAG AATTTCACCT CCTTCGCGGT GATCGAGGCC CTGGGAAGCG
CCCTCACCAA CAAATACTCA GAAGGCATGC CGGGAAATCG CTACTACGGC GGCAACGAGT TCATTGACGA GATCGAAAAC
CTGTGTCGCT CACGCGCCCT CACCGCCTTC CACCTCGATG CCCAATCGTG GGGGGTCAAT GTGCAGCCCT ACTCGGGCTC
CCCGGCCAAC TTCGCCGCGT ACACGGCGGT GCTGAACCCC CACGACCGCA TCATGGGGCT GGATCTGCCC TCTGGCGGTC
ACCTCACCCA CGGGTACTAC ACCTCCGGCG GGAAGAAGAT CTCTGCCACC TCAATATACT TCGAGAGCCT CCCGTACAAG
GTGAACTCCA CCACGGGGTT CATTGACTAC GACCGATTGG AGGAGAAGGC GCTGGACTTC AGGCCCAAGA TGATAATCTG
CGGCGGAAGC GCCTACCCTC GCGACTGGGA CTACAAACGC TTCCGGGCAA TCGCGGACAT GTGCGGCGCA CTGCTCCTCT
GCGACATGGC GCACATTAGT GGCCTTGTGG CCGCGCAGGA AGCGAACAAC CCCTTCGAAT TTTGCGACAT TGTCACCACC
ACGACGCATA AGAGCTTGCG CGGTCCCAGG GCGGGCATGA TCTTCTACCG GAAGGGTCCG AAGCCGCCCA AGAAGGGGCA
GCCAGAGAAC GCCGTTTATG AATTCGAGGA CAAAATCAAC TTCGCCGTTT TCCCTTCTCT CCAGGGTGGT CCTCACAACC
ACCAGATTGG GGCCCTCGCC GTGGCACTGA AACAGGCCGC GACGCCTGGG TTCAAGGCCT ACGCCAAGCA GGTGAAGGCC
AACGCCGCTG CGCTCGGCAA GTTCTTGATG GGGAAAGGGT ACAGTCTCGT CACCGGTGGA ACGGAGAACC ATCTTGTCTT
GTGGGATCTC AGACCTCTTG GATTGACTGG GAACAAGGTG GAGAAACTTT GTGATCTCTG CAACATTACC GTCAATAAGA
ATGCTGTTTT TGGTGACAGC AGTGCGTTGG CCCCCGGGGG TGTACGAATT GGTGCCCCTG CCATGACTTC TAGGGGTTTG
GTTGAAAAGG ACTTTGAGCA GATTGGTGAG TTCCTTCACC GTGCCGTGAC TCTCACACTA GATATCCAGA AGGAATATGG
CAAACTTCTA AAGGAGTTCA GCAAGGGCCT CGTCGACAAC AAGGCTATTG AAGATCTCAA ATCTGATGTT GAGAAGTTCT
CTGCCGCGTA TGGCATGCCC GGTTTCCTGG TATCTGAAAT GAAGTACAAG AATTAG

[show][hide][copy]PROTEIN

>Vigan.01G208200.01
MDPVSVWGNA PLVTVDPEIH DLIEKEKRRQ CRGIELIASE NFTSFAVIEA LGSALTNKYS EGMPGNRYYG GNEFIDEIEN
LCRSRALTAF HLDAQSWGVN VQPYSGSPAN FAAYTAVLNP HDRIMGLDLP SGGHLTHGYY TSGGKKISAT SIYFESLPYK
VNSTTGFIDY DRLEEKALDF RPKMIICGGS AYPRDWDYKR FRAIADMCGA LLLCDMAHIS GLVAAQEANN PFEFCDIVTT
TTHKSLRGPR AGMIFYRKGP KPPKKGQPEN AVYEFEDKIN FAVFPSLQGG PHNHQIGALA VALKQAATPG FKAYAKQVKA
NAAALGKFLM GKGYSLVTGG TENHLVLWDL RPLGLTGNKV EKLCDLCNIT VNKNAVFGDS SALAPGGVRI GAPAMTSRGL
VEKDFEQIGE FLHRAVTLTL DIQKEYGKLL KEFSKGLVDN KAIEDLKSDV EKFSAAYGMP GFLVSEMKYK N*