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

`SmilChr03G000223`

Chromosome: Chr03 Coordinates: 2610579-2611193 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr03G000223`
Name	SmilChr03G000223
Description	F-box/kelch-repeat protein At3g23880-like
Chromosome / SeqID	Chr03 / NC_080389.1
Coordinates and Strand	2610579 - 2611193 / `+`

ID Mapping

NCBI Gene ID	`LOC131015775`
GeneID	`131015775`
locus_tag	`-`
NCBI Name	`LOC131015775`
Original query	`SmilChr03G000223`

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Functional Annotation

Source	GFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	F-box/kelch-repeat protein At3g23880-like
Product	F-box/kelch-repeat protein At3g23880-like
Arabidopsis	`AT3G23880` (AT3G23880) F-box and associated interaction domains-containing protein [Source:NCBI gene (formerly Entrezgene);Acc:821971] identity=24.7; qcov=1.07; evalue=9.55e-08; confidence=weak
Rice	`-` -
GO	-
KEGG	-
Pfam	PF07734 (FBA_1); PF08268 (FBA_3)
InterPro	-
eggNOG	-
NR	GeneID:131015775

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Cytoplasm	细胞质	0.80000	`XP_057800183.1`
2	Nucleus	细胞核	0.40000	`XP_057800183.1`
3	Cytosol	细胞质基质	0.20000	`XP_057800183.1`
4	Cell membrane	细胞膜	0.20000	`XP_057800183.1`
5	Chromosome	染色体	0.00000	`XP_057800183.1`

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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
`Chr3:2610583`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B120,C72,D2
`Chr3:2610618`	`TAC`	`T`	2bp_deletion	frameshift_variant	6	B85,C33,C63,C64,C66,D5
`Chr3:2610631`	`T`	`TGA`	2bp_insertion	frameshift_variant	2	B12,C87
`Chr3:2610631`	`T`	`TGA`	2bp_insertion	CDS_variant	2	B12,C87
`Chr3:2610672`	`TGG`	`T`	2bp_deletion	frameshift_variant	121	A11,A15,A16,A19,A22,A6,A9,B1,B102,B105,B11,B111,B114,B119,B12,B120,B121,B123,B124,B125,B129,B130,B131,B132,B136,B137,B15,B19,B20,B22,B25,B28,B29,B3,B32,B34,B36,B38,B39,B40,B42,B43,B44,B46,B47,B49,B5,B52,B55,B56,B6,B61,B62,B63,B64,B69,B71,B72,B75,B79,B81,B83,B84,B85,B88,B90,B91,B92,B94,B98,C1,C11,C14,C16,C18,C2,C21,C22,C24,C28,C3,C31,C32,C33,C34,C36,C37,C39,C4,C40,C44,C45,C47,C49,C5,C54,C55,C59,C6,C61,C62,C63,C64,C65,C66,C68,C69,C7,C70,C74,C78,C79,C8,C80,C84,C86,C87,D1,D11,D3,D4
`Chr3:2610684`	`G`	`GT`	1bp_insertion	frameshift_variant	168	A10,A11,A13,A14,A15,A16,A18,A19,A2,A22,A4,A9,B1,B100,B101,B103,B104,B105,B107,B108,B109,B11,B111,B112,B113,B114,B115,B119,B121,B122,B126,B128,B129,B13,B132,B134,B135,B137,B138,B139,B14,B140,B16,B17,B18,B19,B20,B21,B22,B23,B25,B26,B27,B29,B30,B31,B34,B35,B36,B37,B38,B4,B40,B41,B42,B45,B46,B48,B49,B5,B50,B54,B57,B6,B60,B61,B63,B64,B68,B69,B70,B71,B72,B74,B76,B77,B80,B81,B85,B88,B89,B9,B91,B92,B93,B94,B95,B98,B99,C1,C11,C12,C13,C14,C15,C17,C21,C22,C25,C26,C27,C28,C3,C30,C33,C34,C36,C37,C38,C39,C41,C42,C45,C46,C48,C49,C5,C50,C51,C52,C53,C55,C56,C57,C58,C59,C61,C62,C63,C64,C65,C66,C69,C73,C74,C75,C76,C78,C79,C8,C80,C81,C82,C83,C84,C85,C87,D1,D10,D11,D2,D3,D4,D5,D6,D7,D8,D9
`Chr3:2610698`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B114
`Chr3:2610700`	`CA`	`C`	1bp_deletion	frameshift_variant	14	A18,A5,B104,B3,B44,B54,B57,B62,B7,B88,C34,C47,C53,C86
`Chr3:2610706`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B102,B13,D7
`Chr3:2610732`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	A2,B93,C53
`Chr3:2610771`	`G`	`A`	EMS_canonical_SNV	CDS_variant	5	B113,B17,B27,C50,C63
`Chr3:2610784`	`G`	`A`	EMS_canonical_SNV	stop_gained	49	A11,A6,A8,B1,B109,B11,B114,B12,B126,B13,B131,B14,B2,B21,B22,B25,B29,B32,B42,B43,B44,B5,B6,B61,B63,B64,B66,B76,B79,B83,B84,B85,B86,B91,C2,C20,C21,C28,C32,C35,C39,C40,C49,C54,C57,C68,C76,C84,C87

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_057800183.1

204 aa

102

204

FBA_1

FBA_3

PF07734 FBA_1 2-171 aa PF08268 FBA_3 11-138 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057800183.1`	Pfam	`PF07734`	FBA_1	Repeat	2	171	2.6e-12	47.1	F-box associated beta propeller domain
`XP_057800183.1`	Pfam	`PF08268`	FBA_3	Repeat	11	138	1.2e-06	28.6	F-box associated beta propeller 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_057944200.1
ATGGCTTTGGGGTTCGGTTGGGTTGAATCGAGTGATGAGTACAAGTTGTTTGTTCGTGTTGGTGATTTTGATTATTACCTGCACGAGATGAAATGGGTTTACAAAGTTTATAGTTCAAGGACAAAATCATGGAAAACAAGTGAGCACTGTGCAGATTTAGATTCACATTATGTATGGGGGATATTTGCAGGTGGGAAGCTTTACTGGAAGAATCACGGAGATAAAGAGATAGATATTATTTTCTTGGACTTGAAGAGTGA...

CDS

1 records

Download CDS FASTA

LOC131015775
ATGGCTTTGGGGTTCGGTTGGGTTGAATCGAGTGATGAGTACAAGTTGTTTGTTCGTGTTGGTGATTTTGATTATTACCTGCACGAGATGAAATGGGTTTACAAAGTTTATAGTTCAAGGACAAAATCATGGAAAACAAGTGAGCACTGTGCAGATTTAGATTCACATTATGTATGGGGGATATTTGCAGGTGGGAAGCTTTACTGGAAGAATCACGGAGATAAAGAGATAGATATTATTTTCTTGGACTTGAAGAGTGA...

Protein

1 records

Download Protein FASTA

XP_057800183.1
MALGFGWVESSDEYKLFVRVGDFDYYLHEMKWVYKVYSSRTKSWKTSEHCADLDSHYVWGIFAGGKLYWKNHGDKEIDIIFLDLKSEVFGRIELPFDHEFCKKEHWAVGLLGGLLCVLCYIGSSTEVFGVWVMKEAWKRVATFANLVELLQPAPLVVGLNGEILVNCESILLVYDRQDNVFRCHETYYYSPHVFVESLVSPEDV

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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