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

`SmilChr02G005431`

Chromosome: Chr02 Coordinates: 74737112-74739828 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr02G005431`
Name	SmilChr02G005431
Description	uncharacterized SmilChr02G005431
Chromosome / SeqID	Chr02 / NC_080388.1
Coordinates and Strand	74737112 - 74739828 / `-`

ID Mapping

NCBI Gene ID	`LOC131009392`
GeneID	`131009392`
locus_tag	`-`
NCBI Name	`LOC131009392`
Original query	`SmilChr02G005431`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	AT5G01130; symbol=AT5G01130; hit=AT5G01130; species=arabidopsis; confidence=low
Product	AT5G01130; symbol=AT5G01130; hit=AT5G01130; species=arabidopsis; confidence=low
Arabidopsis	`AT5G01130` (AT5G01130) - identity=25.3; qcov=1.14; evalue=3.34e-35; confidence=low
Rice	`Os04g0594500` - identity=27.2; qcov=0.878; evalue=9.79e-20; confidence=low
GO	-
KEGG	-
Pfam	PF05056 (DUF674)
InterPro	-
eggNOG	-
NR	GeneID:131009392

Open annotation module

Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057792678.1`
2	Cytoplasm	细胞质	0.20000	`XP_057792678.1`
3	Chromosome	染色体	0.00000	`XP_057792678.1`
4	Centromere	着丝粒	0.00000	`XP_057792678.1`
5	Chromatin	染色质	0.00000	`XP_057792678.1`

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
`Chr2:74737257`	`A`	`AC`	1bp_insertion	frameshift_variant	10	A14,B118,B60,B84,C10,C12,C35,C44,C86,D9
`Chr2:74737260`	`T`	`TC`	1bp_insertion	frameshift_variant	10	A14,B118,B60,B84,C10,C12,C35,C44,C86,D9
`Chr2:74737950`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B104
`Chr2:74737955`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C59
`Chr2:74738053`	`T`	`TCA`	2bp_insertion	frameshift_variant	104	A11,A14,A15,A16,A18,A2,A21,A22,A23,A24,A25,A7,A8,B100,B105,B118,B121,B123,B13,B133,B135,B139,B14,B15,B2,B20,B24,B26,B27,B28,B29,B3,B31,B34,B35,B36,B37,B42,B43,B44,B46,B49,B5,B52,B54,B56,B61,B62,B64,B66,B68,B70,B71,B74,B79,B8,B84,B90,B92,B96,B98,C12,C15,C16,C17,C18,C19,C21,C27,C29,C30,C32,C33,C34,C39,C40,C42,C45,C48,C49,C55,C57,C59,C6,C61,C68,C7,C70,C73,C75,C77,C8,C80,C83,C85,C86,C9,D1,D10,D2,D3,D5,D7,D9
`Chr2:74738056`	`T`	`TTA`	2bp_insertion	frameshift_variant	93	A18,A19,A2,A20,A21,A22,A3,A4,A5,A6,A7,B101,B102,B104,B11,B111,B115,B120,B121,B126,B129,B13,B137,B139,B14,B140,B15,B20,B23,B28,B3,B33,B35,B36,B4,B44,B45,B46,B51,B52,B54,B55,B56,B6,B62,B67,B68,B7,B70,B72,B75,B79,B8,B81,B88,B90,B92,B94,B95,B96,B98,C1,C11,C13,C18,C21,C25,C27,C29,C38,C39,C42,C45,C49,C54,C56,C6,C62,C69,C70,C74,C77,C78,C8,C80,C82,C83,C84,C85,C87,D1,D4,D5
`Chr2:74738106`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	A23
`Chr2:74738149`	`GA`	`G`	1bp_deletion	frameshift_variant	9	A1,B106,B34,B5,B84,C24,C31,C47,C50
`Chr2:74738287`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	C72
`Chr2:74738297`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	C80,D10
`Chr2:74738307`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	C80
`Chr2:74738313`	`C`	`CA`	1bp_insertion	frameshift_variant	1	C72

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_057792678.1

402 aa

201

402

DUF674

PF05056 DUF674 4-97 aa PF05056 DUF674 100-264 aa PF05056 DUF674 317-361 aa PF05056 DUF674 319-393 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057792678.1`	Pfam	`PF05056`	DUF674	Family	4	97	1.2e-70	239.3	Protein of unknown function (DUF674)
`XP_057792678.1`	Pfam	`PF05056`	DUF674	Family	100	264	1.2e-70	239.3	Protein of unknown function (DUF674)
`XP_057792678.1`	Pfam	`PF05056`	DUF674	Family	317	361	1.2e-70	239.3	Protein of unknown function (DUF674)
`XP_057792678.1`	Pfam	`PF05056`	DUF674	Family	319	393	1.2e-70	239.3	Protein of unknown function (DUF674)

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_057936695.1
ATTTTCACAGCCTCTATAAAATTCGCTTGACCGCCCAAACTCTTGCGACTGCTGCTTTTCTCAATTCTCTGCAAACACTTCAAAGCAACTAAAATTCCCCAATTCGTAACAAGAGAATGTCTGAGGAGGAAGAAAAGATTCATGTCAAGTTAATAATGAATAAAGGGAAAACCAAGGTACTATTTGCAGAAGCCGGCAGCGATTTCGTAGACGCTTTGTTAAGCTTCCTGCCTCTTCCATTGGGAACGATTGTGAAGGTC...

CDS

1 records

Download CDS FASTA

LOC131009392
ATGTCTGAGGAGGAAGAAAAGATTCATGTCAAGTTAATAATGAATAAAGGGAAAACCAAGGTACTATTTGCAGAAGCCGGCAGCGATTTCGTAGACGCTTTGTTAAGCTTCCTGCCTCTTCCATTGGGAACGATTGTGAAGGTCTTGAAGAAGCAGTTTGGAGAGAAGGTGCTCCTAGCTGGAAGCTTGAAAACTCTGTACAACGGCTTAGCAAATCTCGACACCATCCATTTCCTGACTGAGGATGCTAAGATCTTGCT...

Protein

1 records

Download Protein FASTA

XP_057792678.1
MSEEEEKIHVKLIMNKGKTKVLFAEAGSDFVDALLSFLPLPLGTIVKVLKKQFGEKVLLAGSLKTLYNGLANLDTIHFLTEDAKILLLNPTSLDEDEQLPLDEVFTETTASFIISDDLKVMRSVEGSVMSTLRSLGIAITDMDGAEIRDMHLGYAQMMTLMAIMFVSRNPLTTLLLLTLTRQAAGQGNAVNQIGKRAHCMNTKKISLTAMMQKSTNKLLFAQARHDFVSFLFGLLAIPLGRVEWFLHSNTGVRATDNLHR...

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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