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

`SmilChr01G000038`

Chromosome: Chr01 Coordinates: 611818-613189 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr01G000038`
Name	SmilChr01G000038
Description	uncharacterized SmilChr01G000038
Chromosome / SeqID	Chr01 / NC_080387.1
Coordinates and Strand	611818 - 613189 / `-`

ID Mapping

NCBI Gene ID	`LOC131007174`
GeneID	`131007174`
locus_tag	`-`
NCBI Name	`LOC131007174`
Original query	`SmilChr01G000038`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	hit=Os08g0467600; species=rice; confidence=low
Product	hit=Os08g0467600; species=rice; confidence=low
Arabidopsis	`-` -
Rice	`Os08g0467600` - identity=34.6; qcov=0.481; evalue=8.53e-07; confidence=low
GO	GO:0005634 (nucleus); GO:0006355 (regulation of DNA-templated transcription)
KEGG	-
Pfam	PF04504 (GeBP-like_DBD)
InterPro	-
eggNOG	-
NR	GeneID:131007174

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057790326.1`
2	Chromosome	染色体	0.00000	`XP_057790326.1`
3	Centromere	着丝粒	0.00000	`XP_057790326.1`
4	Chromatin	染色质	0.00000	`XP_057790326.1`
5	Telomere	端粒	0.00000	`XP_057790326.1`

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
`Chr1:612415`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	B22,C26
`Chr1:612451`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B104
`Chr1:612531`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B139
`Chr1:612560`	`C`	`CT`	1bp_insertion	frameshift_variant	1	C61
`Chr1:612560`	`C`	`CT`	1bp_insertion	CDS_variant	1	C61
`Chr1:612656`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	C3,D8
`Chr1:612676`	`TTA`	`T`	2bp_deletion	frameshift_variant	11	B1,B22,B24,B53,B55,B63,B68,C26,C6,C76,C85
`Chr1:612723`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	D9
`Chr1:612734`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	A22,B53,C29

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_057790326.1

235 aa

118

235

GeBP-like_DBD

PF04504 GeBP-like_DBD 41-127 aa

XP_057790327.1

235 aa

118

235

GeBP-like_DBD

PF04504 GeBP-like_DBD 41-127 aa

XP_057790328.1

223 aa

112

223

GeBP-like_DBD

PF04504 GeBP-like_DBD 41-127 aa

XP_057790329.1

216 aa

108

216

GeBP-like_DBD

PF04504 GeBP-like_DBD 41-127 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057790326.1`	Pfam	`PF04504`	GeBP-like_DBD	Domain	41	127	1.2e-14	55.5	Glabrous-enhancer-binding protein-like family, DBD domain
`XP_057790327.1`	Pfam	`PF04504`	GeBP-like_DBD	Domain	41	127	1.2e-14	55.5	Glabrous-enhancer-binding protein-like family, DBD domain
`XP_057790328.1`	Pfam	`PF04504`	GeBP-like_DBD	Domain	41	127	4.4e-15	56.9	Glabrous-enhancer-binding protein-like family, DBD domain
`XP_057790329.1`	Pfam	`PF04504`	GeBP-like_DBD	Domain	41	127	5e-15	56.7	Glabrous-enhancer-binding protein-like family, DBD 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

4 records

Download cDNA FASTA

XM_057934344.1
AAAAACCGGGTTTTAAGTGAGTGTCCAATTATCACTACCCTTGTATTAATTGCCTTTATTAAATAATCATCATCACACAATTAATAGAGCCGAAAACGAAGTGGAGTAGTATTTTAGAACCCTAAAACAAGCAGGCGCAGCGGTTGAGTTCCCCAAAAAGGCGGGTGTTAGAGTTGTCCGATGTTGGCGAAAGAAAACGAGATGCGCAAGCAAGGTGATTCTGATTGCAGTTCCGATTCTGGGAGCGGAGCACAAGCTAT...

XM_057934346.1
AACCAAAAATCGGCTCATTCTCTACCAAGCCAAAAAACCGGGTTTTAAGTGAGTGTCCAATTATCACTACCCTTGTATTAATTGCCTTTATTAAATAATCATCATCACACAATTAATAGAGCCGAAAACGAAGTGGAGTAGTATTTTAGAACCCTAAAACAAGCAGGCGCAGCGGTTGAGTTCCCCAAAAAGGCGGGTGTTAGAGTTGTCCGATGTTGGCGAAAGAAAACGAGATGCGCAAGCAAGGTGATTCTGATTGC...

CDS

4 records

Download CDS FASTA

LOC131007174
ATGTTGGCGAAAGAAAACGAGATGCGCAAGCAAGGTGATTCTGATTGCAGTTCCGATTCTGGGAGCGGAGCACAAGCTATGACGCTAGCACTGAAACCGAAACACCCGCCGTCGTCGTCGTCTAAGGTATTTAGCGACGAAGACTCAATAACGCTGTTAAAGAGTCTCGCCGTTTTCTGGGCTAGTGGTAGAAATAATAAGTGGGCAGACTTCCACCGGATTGTCAAGGACAAACTTTCCAAGCCAGATTTTACGCGCGT...

Protein

4 records

Download Protein FASTA

XP_057790326.1
MLAKENEMRKQGDSDCSSDSGSGAQAMTLALKPKHPPSSSSKVFSDEDSITLLKSLAVFWASGRNNKWADFHRIVKDKLSKPDFTRVQISEKVRSLNKKYKTNWQRGRVPDNPHELVVYELSKPLWEDEMNQESGKVWEDEMNQESGKGMKKNKKRKRERNPTLDEFRSSYPNLYASFNMFGFPKIARKRCVLLGREKAQKLENEWKQLTEELHCLEGKRLALSTKPTGDNSEEG

XP_057790327.1
MLAKENEMRKQGDSDCSSDSGSGAQAMTLALKPKHPPSSSSKVFSDEDSITLLKSLAVFWASGRNNKWADFHRIVKDKLSKPDFTRVQISEKVRSLNKKYKTNWQRGRVPDNPHELVVYELSKPLWEDEMNQESGKVWEDEMNQESGKGMKKNKKRKRERNPTLDEFRSSYPNLYASFNMFGFPKIARKRCVLLGREKAQKLENEWKQLTEELHCLEGKRLALSTKPTGDNSEEG

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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