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

`SmilChr04G002540`

Chromosome: Chr04 Coordinates: 40667897-40668488 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr04G002540`
Name	SmilChr04G002540
Description	transcription factor TGA2.2-like
Chromosome / SeqID	Chr04 / NC_080390.1
Coordinates and Strand	40667897 - 40668488 / `+`

ID Mapping

NCBI Gene ID	`LOC131023437`
GeneID	`131023437`
locus_tag	`-`
NCBI Name	`LOC131023437`
Original query	`SmilChr04G002540`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Arabidopsis/Rice homolog
Description	transcription factor TGA2.2-like
Product	transcription factor TGA2.2-like
Arabidopsis	`AT1G68640` (PAN) bZIP transcription factor family protein [Source:NCBI gene (formerly Entrezgene);Acc:843194] identity=52.1; qcov=0.712; evalue=4.68e-25; confidence=medium
Rice	`Os03g0318600` (OsbZIP28) transcription factor TGA2.2-like [Source:NCBI gene (formerly Entrezgene);Acc:4332660] identity=53.8; qcov=0.776; evalue=2.73e-29; confidence=medium
GO	GO:0006351 (DNA-templated transcription); GO:0043565 (sequence-specific DNA binding)
KEGG	-
Pfam	-
InterPro	-
eggNOG	-
NR	GeneID:131023437

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057808961.1`
2	Cytoplasm	细胞质	0.80000	`XP_057808961.1`
3	Nucleoplasm	核质	0.20000	`XP_057808961.1`
4	Chromosome	染色体	0.00000	`XP_057808961.1`
5	Centromere	着丝粒	0.00000	`XP_057808961.1`

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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
`Chr4:40667902`	`G`	`A`	EMS_canonical_SNV	stop_gained	2	B59,C81
`Chr4:40667902`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	B59,C81
`Chr4:40667908`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	B124,B135,C37,C77
`Chr4:40667911`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B53
`Chr4:40667918`	`C`	`T`	EMS_canonical_SNV	stop_gained	4	B124,B135,C37,C77
`Chr4:40667918`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	B124,B135,C37,C77
`Chr4:40667923`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	C8
`Chr4:40667924`	`G`	`A`	EMS_canonical_SNV	CDS_variant	4	B124,B135,C37,C77
`Chr4:40667925`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	B120,B129,B62,B89,C26
`Chr4:40667951`	`C`	`T`	EMS_canonical_SNV	stop_gained	7	A1,B139,B59,C18,C22,C27,C81
`Chr4:40667952`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	C6,D11,D2
`Chr4:40667972`	`GA`	`G`	1bp_deletion	frameshift_variant	1	B82

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Predicted Protein Domains

This gene has no available Pfam domain hit in the current release.

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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_057952978.1
ATGTGGCGTCGCAGCCCGGTGCAAACGGCGACGACGACGGCCCCAACACGGCAGCGAGAGGATCTTCGTGTTCACGATGAATCACATCGAGAAGCTCGATCCGACATTGCTGAGGTGCGGGAGAATGAACATGCACATCCATATGAGCTACTGCTAGTTTTCGGCACTCAAAATTCTGTTGAAGAATTATTTAGGATACGAGGAGAGCGACCTGGAGATGGAGGCGGTGGAGGAATTCTCAGCGGTGATCGACGCAGTGG...

CDS

1 records

Download CDS FASTA

LOC131023437
ATGTGGCGTCGCAGCCCGGTGCAAACGGCGACGACGACGGCCCCAACACGGCAGCGAGAGGATCTTCGTGTTCACGATGAATCACATCGAGAAGCTCGATCCGACATTGCTGAGGTGCGGGAGAATGAACATGCACATCCATATGAGCTACTGCTAGTTTTCGGCACTCAAAATTCTGTTGAAGAATTATTTAGGATACGAGGAGAGCGACCTGGAGATGGAGGCGGTGGAGGAATTCTCAGCGGTGATCGACGCAGTGG...

Protein

1 records

Download Protein FASTA

XP_057808961.1
MWRRSPVQTATTTAPTRQREDLRVHDESHREARSDIAEVRENEHAHPYELLLVFGTQNSVEELFRIRGERPGDGGGGGILSGDRRSGDDADRYIYIPLILWIGGFRPSELLKILVSQLEPLTEQQLPGICNLQQSSNQAEYALSQGMEALQQSLAETLASGSSANVVRGR

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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