Gene: TraesCS1D02G157100

Location

Chromosome 1D: 221,444,053-221,445,061 forward strand.

About this gene

This gene has 1 transcript (splice variant) and 37 orthologues.

Transcripts

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Name	Transcript ID	bp	Protein	Biotype	UniProt	Flags
-	TraesCS1D02G157100.1	1009	194aa	Gene/transcipt that contains an open reading frame (ORF).Protein coding	A0A3B5ZSC2	A single transcript chosen for a gene which is the most conserved, most highly expressed, has the longest coding sequence and is represented in other key resources, such as NCBI and UniProt. This is defined in detail on http://www.ensembl.org/info/genome/genebuild/canonical.htmlEnsembl Canonical,

Variant table

This table shows known variants for this gene. Use the 'Consequence Type' filter to view a subset of these.

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SIFT

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ConsequencesAll
Consequences

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PTV
PTV & Missense
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PTV = Protein Truncating Variant
(0)

transcript ablation
(0)

splice acceptor variant
(0)

splice donor variant
(0)

stop gained
(0)

frameshift variant
(0)

stop lost
(0)

start lost
(0)

transcript amplification
(0)

inframe insertion
(0)

inframe deletion
(27)

missense variant
(0)

protein altering variant
(0)

splice donor 5th base variant
(0)

splice region variant
(0)

splice donor region variant
(0)

splice polypyrimidine tract variant
(0)

incomplete terminal codon variant
(0)

start retained variant
(0)

stop retained variant
(17)

synonymous variant
(0)

coding sequence variant
(0)

mature miRNA variant
(1)

5 prime UTR variant
(5)

3 prime UTR variant
(0)

non coding transcript exon variant
(0)

intron variant
(0)

NMD transcript variant
(0)

non coding transcript variant
(0)

coding transcript variant
(5)

upstream gene variant
(4)

downstream gene variant
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LocationAll
Location

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1D:221439053 - 1D:221450061
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ClassAll
Class

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Only Somatic
Not Somatic
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(59)
SNP
(0)
deletion
(0)
genetic marker
(0)
indel
(0)
insertion
(0)
sequence alteration
(0)
substitution
(0)
tandem repeat
(0)
somatic SNV
(0)
somatic deletion
(0)
somatic genetic marker
(0)
somatic indel
(0)
somatic insertion
(0)
somatic sequence alteration
(0)
somatic substitution
(0)
somatic tandem repeat
(0)
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SourceAll
Source

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(15)
CerealsDB
(35)
EMS-induced mutation
(9)
Watkins_collection
(0)
No data
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EvidenceAll
Evidence

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(0)
1000Genomes
(0)
HapMap
(0)
Cited
(0)
ESP
(0)
ExAC
(0)
Frequency
(0)
gnomAD
(0)
Multiple_observations
(0)
Phenotype_or_Disease
(0)
TOPMed
(59)
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Clinical SignificanceAll
Clinical Significance

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(0)
uncertain significance
(0)
not provided
(0)
other
(0)
benign
(0)
likely benign
(0)
association
(0)
histocompatibility
(0)
confers sensitivity
(0)
drug response
(0)
risk factor
(0)
likely pathogenic
(0)
protective
(0)
pathogenic
(59)
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AA coordAll
AA coord

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TranscriptAll
Transcript

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(59)
TraesCS1D02G157100.1
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- Clinical Significance
- AA coord
- Transcript

Variant ID	Chr: bp	Alleles	Class	Source	Evidence	Clin. Sig.	Conseq. Type	AA	AA coord	SIFT	Transcript

chr1D_221439061	1D:221439061	G/C	SNP	Watkins_collection	-	-	A sequence variant located 5' of a geneupstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221440746	1D:221440746	C/T	SNP	Watkins_collection	-	-	A sequence variant located 5' of a geneupstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221440787	1D:221440787	C/T	SNP	Watkins_collection	-	-	A sequence variant located 5' of a geneupstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221441788	1D:221441788	C/T	SNP	Watkins_collection	-	-	A sequence variant located 5' of a geneupstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221442232	1D:221442232	C/T	SNP	Watkins_collection	-	-	A sequence variant located 5' of a geneupstream gene variant	-	-	-	TraesCS1D02G157100.1
Cadenza1544.chr1D.221444140	1D:221444140	C/T	SNP	EMS-induced mutation	-	-	A UTR variant of the 5' UTR5 prime UTR variant	-	-	-	TraesCS1D02G157100.1
Cadenza1243.chr1D.221444187	1D:221444187	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/T	2	0	TraesCS1D02G157100.1
Cadenza0244.chr1D.221444204	1D:221444204	G/A	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	L	7	-	TraesCS1D02G157100.1
Cadenza0268.chr1D.221444232	1D:221444232	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/F	17	0.14	TraesCS1D02G157100.1
Cadenza0108.chr1D.221444261	1D:221444261	G/A	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	A	26	-	TraesCS1D02G157100.1
Cadenza0964.chr1D.221444287	1D:221444287	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	S/F	35	0	TraesCS1D02G157100.1
Cadenza0125.chr1D.221444298	1D:221444298	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/T	39	0.25	TraesCS1D02G157100.1
Cadenza0375.chr1D.221444323	1D:221444323	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	P/L	47	0.29	TraesCS1D02G157100.1
Cadenza0113.chr1D.221444342	1D:221444342	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	L	53	-	TraesCS1D02G157100.1
Cadenza0249.chr1D.221444396	1D:221444396	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	L	71	-	TraesCS1D02G157100.1
Cadenza0897.chr1D.221444453	1D:221444453	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	H	90	-	TraesCS1D02G157100.1
Cadenza0241.chr1D.221444463	1D:221444463	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/T	94	0.11	TraesCS1D02G157100.1
BA00560755	1D:221444486	T/C	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	P	101	-	TraesCS1D02G157100.1
Cadenza1201.chr1D.221444489	1D:221444489	G/A	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	E	102	-	TraesCS1D02G157100.1
BA00676869	1D:221444500	T/C	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/P	106	0.15	TraesCS1D02G157100.1
Cadenza0507.chr1D.221444503	1D:221444503	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	P/L	107	0.03	TraesCS1D02G157100.1
Cadenza0136.chr1D.221444504	1D:221444504	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	P	107	-	TraesCS1D02G157100.1
BA00023669	1D:221444510	C/T	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	S	109	-	TraesCS1D02G157100.1
Cadenza1352.chr1D.221444514	1D:221444514	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/T	111	0.54	TraesCS1D02G157100.1
Cadenza0610.chr1D.221444515	1D:221444515	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/V	111	0.55	TraesCS1D02G157100.1
Cadenza0763.chr1D.221444518	1D:221444518	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	G/D	112	0.23	TraesCS1D02G157100.1
Cadenza1518.chr1D.221444526	1D:221444526	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/T	115	0.36	TraesCS1D02G157100.1
BA00002534	1D:221444526	G/T	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/S	115	1	TraesCS1D02G157100.1
Cadenza0330.chr1D.221444542	1D:221444542	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	R/H	120	0	TraesCS1D02G157100.1
BA00488787	1D:221444546	T/C	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	V	121	-	TraesCS1D02G157100.1
Cadenza0661.chr1D.221444555	1D:221444555	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	I	124	-	TraesCS1D02G157100.1
Cadenza0691.chr1D.221444576	1D:221444576	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	I	131	-	TraesCS1D02G157100.1
Cadenza1266.chr1D.221444586	1D:221444586	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/F	135	0.21	TraesCS1D02G157100.1
BA00228368	1D:221444594	C/T	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	C	137	-	TraesCS1D02G157100.1
Cadenza1534.chr1D.221444596	1D:221444596	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	G/D	138	0	TraesCS1D02G157100.1
BA00135122	1D:221444600	C/G	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	A	139	-	TraesCS1D02G157100.1
Cadenza0897.chr1D.221444601	1D:221444601	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/F	140	0	TraesCS1D02G157100.1
BA00089162	1D:221444601	C/G	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/V	140	0	TraesCS1D02G157100.1
BA00296659	1D:221444602	T/C	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	L/P	140	0	TraesCS1D02G157100.1
BA00699668	1D:221444604	A/G	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	T/A	141	0	TraesCS1D02G157100.1
Cadenza1225.chr1D.221444608	1D:221444608	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/V	142	0	TraesCS1D02G157100.1
BA00274940	1D:221444611	C/T	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/V	143	0.06	TraesCS1D02G157100.1
Cadenza0356.chr1D.221444611	1D:221444611	C/T	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	A/V	143	0.06	TraesCS1D02G157100.1
BA00212912	1D:221444639	C/G	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	I/M	152	0.08	TraesCS1D02G157100.1
BA00674929	1D:221444664	T/C	SNP	CerealsDB	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	Y/H	161	0.18	TraesCS1D02G157100.1
Cadenza1586.chr1D.221444670	1D:221444670	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	E/K	163	0.12	TraesCS1D02G157100.1
Cadenza0998.chr1D.221444678	1D:221444678	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	Y	165	-	TraesCS1D02G157100.1
Cadenza0557.chr1D.221444680	1D:221444680	G/A	SNP	EMS-induced mutation	-	-	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	G/D	166	0.88	TraesCS1D02G157100.1
Cadenza1819.chr1D.221444699	1D:221444699	C/T	SNP	EMS-induced mutation	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	S	172	-	TraesCS1D02G157100.1
BA00824669	1D:221444717	T/C	SNP	CerealsDB	-	-	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	V	178	-	TraesCS1D02G157100.1
BA00242762	1D:221444770	T/G	SNP	CerealsDB	-	-	A UTR variant of the 3' UTR3 prime UTR variant	-	-	-	TraesCS1D02G157100.1
Cadenza1709.chr1D.221444781	1D:221444781	C/T	SNP	EMS-induced mutation	-	-	A UTR variant of the 3' UTR3 prime UTR variant	-	-	-	TraesCS1D02G157100.1
Cadenza0465.chr1D.221444782	1D:221444782	C/T	SNP	EMS-induced mutation	-	-	A UTR variant of the 3' UTR3 prime UTR variant	-	-	-	TraesCS1D02G157100.1
Cadenza1213.chr1D.221444814	1D:221444814	C/T	SNP	EMS-induced mutation	-	-	A UTR variant of the 3' UTR3 prime UTR variant	-	-	-	TraesCS1D02G157100.1
Cadenza0716.chr1D.221444940	1D:221444940	G/A	SNP	EMS-induced mutation	-	-	A UTR variant of the 3' UTR3 prime UTR variant	-	-	-	TraesCS1D02G157100.1
chr1D_221448820	1D:221448820	C/T	SNP	Watkins_collection	-	-	A sequence variant located 3' of a genedownstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221449310	1D:221449310	C/T	SNP	Watkins_collection	-	-	A sequence variant located 3' of a genedownstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221449387	1D:221449387	C/T	SNP	Watkins_collection	-	-	A sequence variant located 3' of a genedownstream gene variant	-	-	-	TraesCS1D02G157100.1
chr1D_221449450	1D:221449450	C/T	SNP	Watkins_collection	-	-	A sequence variant located 3' of a genedownstream gene variant	-	-	-	TraesCS1D02G157100.1

Gene: TraesCS1D02G157100

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Gene: TraesCS1D02G157100

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