Gene Card

Search by standard ID, NCBI Gene ID, GeneID, locus tag, transcript ID, protein ID, or a manually reviewed literature gene name. The page resolves the query to a Red Sage gene and integrates coordinates, sequences, annotations, subcellular localization, EMS variants, and downloads.

Resolved gene

`SmilChr02G000047`

Chromosome: Chr02 Coordinates: 637594-649458 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr02G000047`
Name	SmilChr02G000047
Description	probable sugar phosphate/phosphate translocator At1g12500
Chromosome / SeqID	Chr02 / NC_080388.1
Coordinates and Strand	637594 - 649458 / `+`

ID Mapping

NCBI Gene ID	`LOC131013650`
GeneID	`131013650`
locus_tag	`-`
NCBI Name	`LOC131013650`
Original query	`SmilChr02G000047`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	probable sugar phosphate/phosphate translocator At1g12500
Product	probable sugar phosphate/phosphate translocator At1g12500
Arabidopsis	`AT1G12500` (AT1G12500) Nucleotide-sugar transporter family protein [Source:NCBI gene (formerly Entrezgene);Acc:837807] identity=66.9; qcov=0.675; evalue=1.3e-106; confidence=high
Rice	`Os03g0286300` - identity=56.2; qcov=0.632; evalue=2.48e-83; confidence=high
GO	GO:0005794 (Golgi apparatus); GO:0015297 (antiporter activity)
KEGG	-
Pfam	PF03151 (TPT)
InterPro	-
eggNOG	-
NR	GeneID:131013650

Open annotation module

Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Endoplasmic reticulum	内质网	1.00000	`XP_057797761.1`
2	Endoplasmic reticulum membrane	内质网膜	0.80000	`XP_057797761.1`
3	Nucleus	细胞核	0.00000	`XP_057797761.1`
4	Chromosome	染色体	0.00000	`XP_057797761.1`
5	Centromere	着丝粒	0.00000	`XP_057797761.1`

Open subcellular search

EMS Mutant Variants

The table shows the first 12 candidate EMS variants for this gene. Open the EMS module for full filtering and downloads.

Position	REF	ALT	Type	Effect	Carriers	Samples
`Chr2:637721`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B21,B25,C1
`Chr2:637989`	`TC`	`T`	1bp_deletion	frameshift_variant	50	A24,B114,B12,B121,B125,B136,B137,B16,B24,B29,B34,B35,B41,B45,B47,B49,B5,B53,B59,B60,B61,B65,B73,B78,B84,B93,B94,C18,C19,C2,C24,C25,C27,C34,C35,C38,C4,C42,C51,C55,C59,C60,C65,C68,C72,C76,C83,D10,D11,D2
`Chr2:637997`	`GGT`	`G`	2bp_deletion	frameshift_variant	4	B121,B49,C19,C72
`Chr2:637997`	`GGT`	`G`	2bp_deletion	CDS_variant	4	B121,B49,C19,C72
`Chr2:638044`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B65
`Chr2:643506`	`C`	`T`	EMS_canonical_SNV	stop_gained	14	A6,A7,B125,B90,B91,B95,C11,C21,C26,C44,C53,C69,C73,D7
`Chr2:643548`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	C83,D2
`Chr2:643600`	`CT`	`C`	1bp_deletion	frameshift_variant	65	A10,A20,A21,A22,A24,A5,B1,B105,B106,B113,B119,B12,B120,B122,B123,B128,B130,B131,B19,B28,B31,B38,B39,B40,B42,B43,B48,B52,B55,B56,B57,B58,B6,B65,B70,B75,B77,B8,B85,B9,B96,B99,C12,C15,C2,C23,C27,C30,C32,C39,C47,C49,C50,C52,C54,C59,C65,C67,C68,C7,C71,C79,C85,D11,D4
`Chr2:643636`	`C`	`T`	EMS_canonical_SNV	stop_gained	101	A13,A14,A15,A22,A23,A24,A25,A3,A5,A9,B100,B102,B103,B108,B112,B115,B117,B121,B123,B124,B125,B128,B129,B134,B138,B14,B15,B18,B2,B20,B22,B24,B26,B30,B36,B37,B38,B39,B4,B40,B45,B46,B48,B49,B5,B50,B53,B61,B62,B63,B64,B68,B69,B70,B72,B76,B77,B78,B79,B80,B82,B96,C11,C16,C18,C19,C20,C22,C23,C25,C26,C28,C29,C31,C32,C33,C37,C40,C42,C44,C45,C46,C48,C5,C54,C58,C67,C68,C69,C70,C71,C72,C74,C78,C79,C80,C82,C9,D10,D5,D9
`Chr2:643683`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	A16,B32,B33,B46,C30
`Chr2:643691`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	B51,B94
`Chr2:643725`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B51

Open EMS variants

Predicted Protein Domains

Domain results are from the Pfam-A HMM database and HMMER hmmscan; positions are amino-acid coordinates on the corresponding protein sequence.

XP_057797761.1

372 aa

186

372

TPT

PF03151 TPT 144-358 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057797761.1`	Pfam	`PF03151`	TPT	Family	144	358	1.8e-23	84.0	Triose-phosphate Transporter family

cDNA / CDS / Protein Sequences

Download genomic DNA (gene region only)

Every public gene has transcript sequence from the reference annotation. Protein-coding genes also have CDS and protein sequences. CDS and protein downloads do not apply to noncoding RNA. Version suffixes of original accessions are retained.

cDNA

1 records

Download cDNA FASTA

XM_057941778.1
ATGGAAAGATTTCTCCACTGCAGCAGCACTCGAGAAGATCTGGCAGTCATGTGCAACTTGAGAAACTTGCAAACACTTCAGGTTATGAAGATTTCCAGTGGATTTGCTGAGCAAGAGGCTTGCATTCCCCACTTGCCTAAACAAGTTGTGCTTGTGAAACTGCAGCCTCGCTCGAGAAGATCTGGCAACGATTGGTTCGTTGCCACATCTACAAACGCCTCTGCTTTTCGAGTTCTTGAAAAGCTAGTTGCTCGAGATCT...

CDS

1 records

Download CDS FASTA

LOC131013650
ATGGAAAGATTTCTCCACTGCAGCAGCACTCGAGAAGATCTGGCAGTCATGTGCAACTTGAGAAACTTGCAAACACTTCAGGTTATGAAGATTTCCAGTGGATTTGCTGAGCAAGAGGCTTGCATTCCCCACTTGCCTAAACAAGTTGTGCTTGTGAAACTGCAGCCTCGCTCGAGAAGATCTGGCAACGATTGGTTCGTTGCCACATCTACAAACGCCTCTGCTTTTCGAGTTCTTGAAAAGCTAGTTGCTCGAGATCT...

Protein

1 records

Download Protein FASTA

XP_057797761.1
MERFLHCSSTREDLAVMCNLRNLQTLQVMKISSGFAEQEACIPHLPKQVVLVKLQPRSRRSGNDWFVATSTNASAFRVLEKLVARDLWQLQEIPSGIGEINTLKLIHLHHCSESLAISTAGQHRLVRNVTNVPFQPIHNRRRXFLKILALMPXLSFSVICGNTSLRYLPISFNQAISATTPFFTAIFAFLITCKTESTEVYADLVPIVLASNNEPLFHLFSFLMCVGSIAGRALKSIVQGLLLTSKVEKLHSMNLLLYMA...

Flanking Sequence Downloads

Upstream/downstream length is capped at 10000 bp. Negative-strand genes are reverse-complemented so the exported FASTA follows transcriptional 5′ to 3′ orientation.

Download upstream Download downstream Download upstream + gene + downstream

JBrowse

Open genome browser