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

`SmilChr03G000987`

Chromosome: Chr03 Coordinates: 11181510-11189568 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr03G000987`
Name	SmilChr03G000987
Description	uncharacterized SmilChr03G000987
Chromosome / SeqID	Chr03 / NC_080389.1
Coordinates and Strand	11181510 - 11189568 / `+`

ID Mapping

NCBI Gene ID	`LOC131017498`
GeneID	`131017498`
locus_tag	`-`
NCBI Name	`LOC131017498`
Original query	`SmilChr03G000987`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	plastid transcriptionally active 3 [Source:NCBI gene (formerly Entrezgene);Acc:819581]; symbol=PTAC3; hit=AT3G04260; species=arabidopsis; confidence=high
Product	plastid transcriptionally active 3 [Source:NCBI gene (formerly Entrezgene);Acc:819581]; symbol=PTAC3; hit=AT3G04260; species=arabidopsis; confidence=high
Arabidopsis	`AT3G04260` (PTAC3) plastid transcriptionally active 3 [Source:NCBI gene (formerly Entrezgene);Acc:819581] identity=73.9; qcov=0.935; evalue=0; confidence=high
Rice	`Os10g0462800` (WSL3) white stripe leaf3 [Source:NCBI gene (formerly Entrezgene);Acc:4348823] identity=70.7; qcov=0.929; evalue=0; confidence=high
GO	GO:0005515 (protein binding)
KEGG	-
Pfam	PF02037 (SAP)
InterPro	-
eggNOG	-
NR	GeneID:131017498

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Chloroplast	叶绿体	1.00000	`XP_057802236.1`
2	Chloroplast stroma	叶绿体基质	0.60000	`XP_057802236.1`
3	Chloroplast thylakoid	类囊体	0.40000	`XP_057802236.1`
4	Nucleus	细胞核	0.00000	`XP_057802236.1`
5	Chromosome	染色体	0.00000	`XP_057802236.1`

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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
`Chr3:11181579`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B22
`Chr3:11181582`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B104
`Chr3:11181612`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C12
`Chr3:11181615`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	A25,C44
`Chr3:11181620`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C15
`Chr3:11181625`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C87
`Chr3:11181687`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	B1,B68
`Chr3:11181690`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B131,D7,D9
`Chr3:11181719`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	B129,C22,C87
`Chr3:11181755`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C51
`Chr3:11181766`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B103
`Chr3:11181799`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B104

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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_057802236.1

896 aa

448

896

SAP

PF02037 SAP 541-574 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057802236.1`	Pfam	`PF02037`	SAP	Domain	541	574	4.2e-10	39.7	SAP domain

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_057946253.1
ACTTTCTTCCCCAATCAAACATGGCGTTCTCGCTCCTAACGCAGACGCCTTTCTCTCTCTCACTAACCTCCACCGCCGCCCCTCGAAGCGCCGTCTCCGCGGCGGCGGGGCCTTCCGCCTCGGTATCCACCTCTCAGAGAAAGCCGCGCCGGAAAAAGCAGCAGAACGACCTAAAATCTTCCGACGACAATGGCTATCCGGGAAGCGAGGGCGGGAATTTCGCGCCGTCAAGCGCGGAGAAGCTTCTGAGGCTCGTGTTC...

CDS

1 records

Download CDS FASTA

LOC131017498
ATGGCGTTCTCGCTCCTAACGCAGACGCCTTTCTCTCTCTCACTAACCTCCACCGCCGCCCCTCGAAGCGCCGTCTCCGCGGCGGCGGGGCCTTCCGCCTCGGTATCCACCTCTCAGAGAAAGCCGCGCCGGAAAAAGCAGCAGAACGACCTAAAATCTTCCGACGACAATGGCTATCCGGGAAGCGAGGGCGGGAATTTCGCGCCGTCAAGCGCGGAGAAGCTTCTGAGGCTCGTGTTCATGGAGGAGCTGATGGAGCG...

Protein

1 records

Download Protein FASTA

XP_057802236.1
MAFSLLTQTPFSLSLTSTAAPRSAVSAAAGPSASVSTSQRKPRRKKQQNDLKSSDDNGYPGSEGGNFAPSSAEKLLRLVFMEELMERARSGSAAGVSDIIYDMIAAGLTPGPRSFHGLVVSHVLSRDEEGSMHALRRQLSEGLRPLHETFLALVRLFGSKGRATRGLEILAAMEKLNYDIRQAWLLLVEELVKGKHLEDANRVFLKGAEGGLRATDKLYDLLIEEDCKVGDHSNALTIAYEMEAAGRMATTFHFNCLLSV...

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.

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