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

`SmilChr02G001688`

Chromosome: Chr02 Coordinates: 31111086-31112141 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr02G001688`
Name	SmilChr02G001688
Description	uncharacterized protein At2g29880-like
Chromosome / SeqID	Chr02 / NC_080388.1
Coordinates and Strand	31111086 - 31112141 / `-`

ID Mapping

NCBI Gene ID	`LOC131008294`
GeneID	`131008294`
locus_tag	`-`
NCBI Name	`LOC131008294`
Original query	`SmilChr02G001688`

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Functional Annotation

Source	GFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	Myb/SANT-like DNA-binding domain protein [Source:NCBI gene (formerly Entrezgene);Acc:817538]; symbol=AT2G29880; hit=AT2G29880; species=arabidopsis; confidence=medium
Product	Myb/SANT-like DNA-binding domain protein [Source:NCBI gene (formerly Entrezgene);Acc:817538]; symbol=AT2G29880; hit=AT2G29880; species=arabidopsis; confidence=medium
Arabidopsis	`AT2G29880` (AT2G29880) Myb/SANT-like DNA-binding domain protein [Source:NCBI gene (formerly Entrezgene);Acc:817538] identity=35.6; qcov=0.886; evalue=1.1e-29; confidence=medium
Rice	`-` -
GO	-
KEGG	-
Pfam	PF12776 (Myb_DNA-bind_3); PF24769 (At2g29880_C)
InterPro	-
eggNOG	-
NR	GeneID:131008294

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057791165.1`
2	Chromosome	染色体	0.00000	`XP_057791165.1`
3	Centromere	着丝粒	0.00000	`XP_057791165.1`
4	Chromatin	染色质	0.00000	`XP_057791165.1`
5	Telomere	端粒	0.00000	`XP_057791165.1`

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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
`Chr2:31111120`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C63
`Chr2:31111289`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	B57,B87,B89,D4
`Chr2:31111339`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	B62,D10
`Chr2:31111357`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	B46,D3
`Chr2:31111450`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B114
`Chr2:31111540`	`TCC`	`T`	2bp_deletion	frameshift_variant	5	C31,C34,C4,C58,D8
`Chr2:31111540`	`TCC`	`T`	2bp_deletion	CDS_variant	5	C31,C34,C4,C58,D8
`Chr2:31111544`	`CTA`	`C`	2bp_deletion	frameshift_variant	3	A15,B129,B99
`Chr2:31111544`	`CTA`	`C`	2bp_deletion	CDS_variant	3	A15,B129,B99
`Chr2:31111556`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C31
`Chr2:31111579`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B109
`Chr2:31111597`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B109

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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_057791165.1

263 aa

132

263

Myb_DNA-bind_3

At2g29880_C

PF12776 Myb_DNA-bind_3 21-54 aa PF24769 At2g29880_C 215-259 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057791165.1`	Pfam	`PF12776`	Myb_DNA-bind_3	Domain	21	54	4.1e-06	28.4	Myb/SANT-like DNA-binding domain
`XP_057791165.1`	Pfam	`PF24769`	At2g29880_C	Domain	215	259	2e-18	67.2	At2g29880 C-terminal 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_057935182.1
ATGGGAGACTCTCAACCACAAGATTCCAAAAAAAGGGCAGTGTATGAAGCATGGACAAAGGAACAAAGTGATGCCTTGTTAGAAATTCTGTTTAACTCTGGTTTTGGCTATGACAACAACACCAAAAAATTCACGGCCTCAGATGAAGTATGGGATGCGTATATAGAGGCTCACCCAAAAGATGCATACTTACGCACTGGGAGTTTTTCGGATTTTGGAGACTTGGGGATTGCTGTTGGAAACAGTGTGGCTGTAGGAAG...

CDS

1 records

Download CDS FASTA

LOC131008294
ATGGGAGACTCTCAACCACAAGATTCCAAAAAAAGGGCAGTGTATGAAGCATGGACAAAGGAACAAAGTGATGCCTTGTTAGAAATTCTGTTTAACTCTGGTTTTGGCTATGACAACAACACCAAAAAATTCACGGCCTCAGATGAAGTATGGGATGCGTATATAGAGGCTCACCCAAAAGATGCATACTTACGCACTGGGAGTTTTTCGGATTTTGGAGACTTGGGGATTGCTGTTGGAAACAGTGTGGCTGTAGGAAG...

Protein

1 records

Download Protein FASTA

XP_057791165.1
MGDSQPQDSKKRAVYEAWTKEQSDALLEILFNSGFGYDNNTKKFTASDEVWDAYIEAHPKDAYLRTGSFSDFGDLGIAVGNSVAVGRNAIGLGSATNARTIGVDESRGPNIEELNYDAENEAFVVLGQDDPPLSGSKSPVAFTEVSVESTQRRAPAKRSRGQFETNSGHTENSSHQEFMAEINKITSTMDRVESLFVKRDTMLERREKEKSYTTWDAIKEIPDLSDDARMKAFDLLVTKSQKDGFMKMTVPERKRWIESK...

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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