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

`SmilChr02G002306`

Chromosome: Chr02 Coordinates: 40684245-40687671 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr02G002306`
Name	SmilChr02G002306
Description	uncharacterized SmilChr02G002306
Chromosome / SeqID	Chr02 / NC_080388.1
Coordinates and Strand	40684245 - 40687671 / `+`

ID Mapping

NCBI Gene ID	`LOC131008456`
GeneID	`131008456`
locus_tag	`-`
NCBI Name	`LOC131008456`
Original query	`SmilChr02G002306`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	hit=Os03g0627900; species=rice; confidence=high
Product	hit=Os03g0627900; species=rice; confidence=high
Arabidopsis	`-` -
Rice	`Os03g0627900` - identity=47.3; qcov=0.841; evalue=1.86e-66; confidence=high
GO	-
KEGG	-
Pfam	PF24626 (SH3_Tf2-1)
InterPro	-
eggNOG	-
NR	GeneID:131008456

Open annotation module

Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057791315.1`
2	Cytoplasm	细胞质	0.40000	`XP_057791315.1`
3	Chromosome	染色体	0.20000	`XP_057791315.1`
4	Nucleoplasm	核质	0.20000	`XP_057791315.1`
5	Centromere	着丝粒	0.00000	`XP_057791315.1`

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
`Chr2:40684247`	`G`	`A`	EMS_canonical_SNV	CDS_variant	4	A19,B110,C80,D10
`Chr2:40684253`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	B113,B39,B65,B77,C6
`Chr2:40684256`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C68
`Chr2:40684259`	`G`	`A`	EMS_canonical_SNV	CDS_variant	4	B109,C22,C66,C81
`Chr2:40684263`	`CTG`	`C`	2bp_deletion	frameshift_variant	16	A2,B102,B103,B109,B120,B17,B29,B4,B74,B81,B89,B9,B91,C20,C38,C39
`Chr2:40684272`	`C`	`T`	EMS_canonical_SNV	stop_gained	127	A1,A14,A18,A2,A20,A21,A23,A24,A25,A3,A4,A5,A8,B1,B100,B101,B104,B105,B106,B107,B11,B110,B114,B12,B124,B127,B128,B130,B131,B133,B137,B138,B139,B14,B16,B18,B19,B21,B23,B26,B27,B28,B29,B3,B4,B41,B42,B43,B46,B49,B50,B51,B53,B55,B57,B60,B61,B62,B63,B65,B67,B68,B69,B75,B76,B78,B79,B80,B81,B82,B83,B84,B85,B86,B87,B90,B92,B94,C11,C12,C15,C16,C2,C21,C23,C24,C27,C28,C30,C32,C33,C34,C37,C38,C41,C50,C53,C54,C55,C56,C60,C61,C62,C63,C64,C66,C68,C69,C71,C72,C76,C78,C79,C80,C81,C82,C83,C84,C86,C87,D1,D2,D3,D5,D6,D7,D8
`Chr2:40684280`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	A9,B128,B30,B64,C19
`Chr2:40684294`	`TC`	`T`	1bp_deletion	frameshift_variant	4	B101,B13,B95,C43
`Chr2:40684294`	`TC`	`T`	1bp_deletion	CDS_variant	4	B101,B13,B95,C43
`Chr2:40684297`	`G`	`A`	EMS_canonical_SNV	stop_gained	16	B113,B114,B139,B28,B39,B48,B65,B77,B94,C29,C45,C52,C6,C64,C67,D11
`Chr2:40684311`	`GA`	`G`	1bp_deletion	frameshift_variant	170	A10,A11,A14,A15,A18,A19,A2,A20,A21,A22,A23,A25,A9,B10,B100,B102,B104,B105,B106,B107,B108,B11,B111,B115,B117,B118,B119,B12,B120,B121,B122,B123,B124,B126,B127,B129,B130,B131,B133,B134,B135,B136,B137,B14,B140,B15,B17,B18,B19,B2,B20,B21,B26,B29,B30,B33,B34,B35,B36,B37,B38,B39,B4,B40,B41,B44,B45,B46,B48,B49,B51,B52,B55,B56,B57,B59,B6,B60,B63,B64,B65,B67,B68,B7,B71,B72,B73,B74,B76,B77,B79,B80,B82,B83,B84,B85,B87,B88,B9,B90,B92,B93,B94,B96,B97,B99,C1,C11,C14,C16,C18,C19,C20,C23,C24,C26,C27,C30,C31,C32,C34,C36,C37,C38,C40,C44,C45,C47,C48,C49,C5,C50,C51,C52,C53,C54,C55,C56,C57,C58,C59,C6,C61,C62,C63,C65,C67,C69,C70,C71,C72,C73,C75,C76,C77,C8,C82,C83,C84,C85,C86,C87,D10,D11,D2,D4,D6,D7,D8,D9
`Chr2:40684314`	`C`	`T`	EMS_canonical_SNV	stop_gained	189	A10,A11,A14,A15,A18,A19,A2,A20,A21,A22,A23,A25,A3,A7,A9,B10,B100,B102,B103,B104,B105,B106,B107,B108,B109,B11,B111,B115,B117,B118,B119,B12,B120,B121,B122,B123,B124,B126,B127,B128,B129,B13,B130,B131,B132,B133,B134,B135,B136,B137,B14,B140,B15,B17,B18,B19,B2,B20,B21,B26,B29,B3,B30,B31,B33,B34,B35,B36,B37,B38,B39,B4,B40,B41,B44,B45,B46,B48,B49,B51,B52,B55,B56,B57,B58,B59,B6,B60,B61,B63,B64,B65,B66,B67,B68,B7,B71,B72,B73,B74,B76,B77,B79,B80,B81,B82,B83,B84,B85,B87,B88,B9,B90,B92,B93,B94,B96,B97,B99,C1,C11,C14,C15,C16,C18,C19,C20,C23,C24,C26,C27,C29,C30,C31,C32,C33,C34,C36,C37,C38,C40,C42,C44,C45,C47,C48,C49,C5,C50,C51,C52,C53,C54,C55,C56,C57,C58,C59,C6,C61,C62,C63,C64,C65,C66,C67,C69,C70,C71,C72,C73,C75,C76,C77,C8,C82,C83,C84,C85,C86,C87,D10,D11,D2,D4,D6,D7,D8,D9

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_057791315.1

239 aa

120

239

SH3_Tf2-1

PF24626 SH3_Tf2-1 69-134 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057791315.1`	Pfam	`PF24626`	SH3_Tf2-1	Domain	69	134	2.9e-25	88.9	Tf2-1-like, SH3 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_057935332.1
ATGGCTCCCTACGAGGCACTGTATGGACGAAAATGCAGATCACCCCTTTTCTGGGATGAAGTGGGTGAACGAAAACTGCTGGGACCAGAACTAGTTCAACAAATGATCGAGAAAGTTGACCAGGTCAAACAGAAGATCAAGGAAGCACAAGACAGGCAAAAGTCATATGCCGATACACGACGCACTGAACTAGAATTCAACACGGGGGCTCGAGTTTTTCTCAAAATCTCCCCCACAAAGGGAGTAATCCATTTTGGAAG...

CDS

1 records

Download CDS FASTA

LOC131008456
ATGGCTCCCTACGAGGCACTGTATGGACGAAAATGCAGATCACCCCTTTTCTGGGATGAAGTGGGTGAACGAAAACTGCTGGGACCAGAACTAGTTCAACAAATGATCGAGAAAGTTGACCAGGTCAAACAGAAGATCAAGGAAGCACAAGACAGGCAAAAGTCATATGCCGATACACGACGCACTGAACTAGAATTCAACACGGGGGCTCGAGTTTTTCTCAAAATCTCCCCCACAAAGGGAGTAATCCATTTTGGAAG...

Protein

1 records

Download Protein FASTA

XP_057791315.1
MAPYEALYGRKCRSPLFWDEVGERKLLGPELVQQMIEKVDQVKQKIKEAQDRQKSYADTRRTELEFNTGARVFLKISPTKGVIHFGSRGKLRPRYIGPFEILNRVGKVAYRLALPPSIGDVHNVFHVSQLQKYVFDPKHVVKHEKVVLAQDLSYEEKPVQILDRKVQVLRNKQIPMVKVLWHHHRIEEATWELEEKMRAQYPELDYQGLVARWVDRHRALTDLERYEGGCLIGGYPEHN

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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