Transcript: Os03t0424200-01 OsPUB57-201

Location

Chromosome 3: 17,702,709-17,710,049 reverse strand.

About this transcript

This transcript has 11 exons, is annotated with 10 domains and features, is associated with 354 variant alleles and maps to 58 oligo probes.

Gene

This transcript is a product of gene Os03g0424200 Show transcript tableHide transcript table

Name	Transcript ID	bp	Protein	Biotype	UniProt	Flags
OsPUB57-201	Os03t0424200-01	3633	518aa	Gene/transcipt that contains an open reading frame (ORF).Protein coding	Q0DR28	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,

Variants

Filter

SIFTAll
SIFT

more rows pending

0 - 1
0
1
include blank
Apply »
Cancel
ConsequencesAll
Consequences

more rows pending
(31/31 on)
Turn All Off
PTV
PTV & Missense
Only Exonic
Turn All On
PTV = Protein Truncating Variant
(0)

transcript ablation
(0)

splice acceptor variant
(0)

splice donor variant
(1)

stop gained
(1)

frameshift variant
(0)

stop lost
(0)

start lost
(0)

transcript amplification
(1)

inframe insertion
(0)

inframe deletion
(41)

missense variant
(1)

protein altering variant
(0)

splice donor 5th base variant
(1)

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
(12)

synonymous variant
(0)

coding sequence variant
(0)

mature miRNA variant
(0)

5 prime UTR variant
(0)

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
(0)

upstream gene variant
(0)

downstream gene variant
Apply »
Cancel
SourceAll
Source

more rows pending
(1/1 on)
Turn All Off
Turn All On
(57)
EVA
Apply »
Cancel
EvidenceAll
Evidence

more rows pending
(11/11 on)
Turn All Off
Turn All On
(0)
1000Genomes
(0)
HapMap
(0)
Cited
(0)
ESP
(0)
ExAC
(0)
Frequency
(0)
gnomAD
(0)
Multiple_observations
(0)
Phenotype_or_Disease
(0)
TOPMed
(57)
No data
Apply »
Cancel
Filter Other ColumnsAll
Filter Other Columns

Residue	Variant ID	Conseq. Type	Source	Evidence	Alleles	Ambig. code	Residues	Codons	SIFT

7	vcZ27DUN6	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/C	Y	N, D	AAT, GAT	0.92
14	vcZ27DUN5	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	G/A	R	I	ATC, ATT	-
20	TBGI147746	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/C/G	V	L, W	TTG, TGG	0.1
20	TBGI147746	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/C/G	V	L, S	TTG, TCG	0.3
36	vcZ27DUN3	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	E, K	GAA, AAA	0.02
69	vcZ27DUN1	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/C	Y	Y, C	TAT, TGT	0
76	vcZ27DUMZ	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	L, P	CTC, CCC	0
76	vcZ27DUN0	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	L, F	CTC, TTC	0.33
77	vcZ27DUMY	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/A	W	Q, L	CAG, CTG	0.01
77	10317704892	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	C/T	Y	Q	CAG, CAA	-
78	vcZ27DUMW	A sequence_variant which is predicted to change the protein encoded in the coding sequenceprotein altering variant	EVA	-	AT/AATGTCCTTC... AT/AATGTCCTTCA	-	H, LKDI	CAT, CTG... CAT, CTGAAGGACATT	-
82	rs19552519	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	R, Q	CGG, CAG	1
84	vcZ27DUMO	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intronsplice region variant	EVA	-	G/A	R	T, M	ACG, ATG	0.15
105	rs19552509	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/A	M	A, S	GCT, TCT	0.8
116	TBGI147742	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	T/C	Y	V	GTA, GTG	-
136	vcZ27DUMF	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	L, S	TTA, TCA	0.01
149	vcZ27DUME	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	R, C	CGC, TGC	0.07
151	vcZ27DUMD	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	G/A	R	D	GAC, GAT	-
165	vcZ27DUMC	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	V, I	GTT, ATT	1
177	vcZ27DUMB	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	M, I	ATG, ATA	0.71
181	rs53138548	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	M, T	ATG, ACG	1
181	rs53376385	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/G	S	M, I	ATG, ATC	0.02
184	rs54163678	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/C	M	L, V	TTA, GTA	0.01
184	rs53814365	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	L, S	TTA, TCA	0.01
192	rs54163037	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/C	Y	K, R	AAG, AGG	0.05
194	vcZ27DUMA	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	A/G	R	F	TTT, TTC	-
195	rs54041103	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	T/C	Y	Q	CAA, CAG	-
202	vcZ27DUM8	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	R, S	CGC, AGC	1
217	vcZ27DUM7	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	S, L	TCG, TTG	0.06
218	rs53818633	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	E, K	GAG, AAG	0.04
220	rs54327780	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	G/T	K	S	TCC, TCA	-
243	rs53308248	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/G	S	A, P	GCA, CCA	1
255	rs19552469	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/A	M	G, W	GGG, TGG	0.05
259	rs53298238	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/C	M	C, W	TGT, TGG	0.01
267	rs19552459	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	N, K	AAC, AAA	0.08
269	rs53849942	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	S, P	TCT, CCT	1
288	vcZ27DUM4	A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcriptstop gained	EVA	-	G/C	S	Y, *	TAC, TAG	-
289	vcZ27DUM3	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/C	Y	R, G	AGA, GGA	0.09
302	vcZ27DUM2	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	L, M	CTG, ATG	0.09
326	vcZ27DUM1	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/T	Y	G, E	GGA, GAA	0.02
326	rs53775766	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	T/C	Y	G	GGA, GGG	-
328	vcZ27DUM0	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	L, I	CTC, ATC	0.07
345	vcZ27DULZ	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	C/T	Y	L	TTG, TTA	-
359	rs19552449	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/A	W	E, V	GAA, GTA	0.31
384	rs19552439	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	T/A	W	Q, H	CAA, CAT	0.01
387	10317703579	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	L, F	CTC, TTC	0.68
397	vcZ27DULV	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	T/G	K	R	AGG, CGG	-
412	vcZ27DULU	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	C/A	M	E, D	GAG, GAT	0.05
440	vcZ27DULT	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	A/G	R	I	ATT, ATC	-
444	vcZ27DULS	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	S, R	AGC, AGA	0.15
468	vcZ27DULO	A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of threeframeshift variant	EVA	-	ACC/AC	-	WF, CX	TGGTTT, ... TGGTTT, TGTTT	-
479	vcZ27DULN	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	T, M	ACG, ATG	0.01
488	vcZ27DULM	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/T	K	L, I	CTC, ATC	0.04
488	vcZ27DULL	A sequence variant where there is no resulting change to the encoded amino acidsynonymous variant	EVA	-	G/A	R	L	CTC, CTT	-
490	vcZ27DULK	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	G/A	R	P, L	CCT, CTT	0
493	vcZ27DULJ	A sequence variant, that changes one or more bases, resulting in a different amino acid sequence but where the length is preservedmissense variant	EVA	-	A/G	R	V, A	GTC, GCC	1
507	vcZ27DULI	An inframe non synonymous variant that inserts bases into in the coding sequenceinframe insertion	EVA	-	GG/GGCTGCTG... GG/GGCTGCTG	-	P, QQP	CCG, CAG... CCG, CAGCAGCCG	-

Personal Data

Transcript: Os03t0424200-01 OsPUB57-201

Variants

About Us

Get help

Our sister sites

Follow us

Favourite species

All species

Recent locations

Transcript: Os03t0424200-01 OsPUB57-201

Variants

About Us

Get help

Our sister sites

Follow us