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

`SmilChr04G003524`

Chromosome: Chr04 Coordinates: 51604902-51608912 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr04G003524`
Name	SmilChr04G003524
Description	protein RKD1-like
Chromosome / SeqID	Chr04 / NC_080390.1
Coordinates and Strand	51604902 - 51608912 / `-`

ID Mapping

NCBI Gene ID	`LOC131023588`
GeneID	`131023588`
locus_tag	`-`
NCBI Name	`LOC131023588`
Original query	`SmilChr04G003524`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	protein RKD1-like
Product	protein RKD1-like
Arabidopsis	`AT1G18790` (RKD1) RWP-RK domain-containing protein [Source:NCBI gene (formerly Entrezgene);Acc:838461] identity=64.9; qcov=0.506; evalue=1.22e-51; confidence=medium
Rice	`Os06g0228950` - identity=63.7; qcov=0.479; evalue=8.09e-48; confidence=medium
GO	GO:0003700 (DNA-binding transcription factor activity)
KEGG	-
Pfam	PF02042 (RWP-RK)
InterPro	-
eggNOG	-
NR	GeneID:131023588

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057809114.1`
2	Chromosome	染色体	0.00000	`XP_057809114.1`
3	Centromere	着丝粒	0.00000	`XP_057809114.1`
4	Chromatin	染色质	0.00000	`XP_057809114.1`
5	Telomere	端粒	0.00000	`XP_057809114.1`

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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
`Chr4:51608118`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B124
`Chr4:51608121`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B13
`Chr4:51608299`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B13
`Chr4:51608349`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	D11
`Chr4:51608409`	`GT`	`G`	1bp_deletion	frameshift_variant	1	B29
`Chr4:51608409`	`GT`	`G`	1bp_deletion	CDS_variant	1	B29
`Chr4:51608788`	`C`	`CT`	1bp_insertion	frameshift_variant	160	A10,A11,A14,A16,A18,A19,A2,A20,A22,A3,A6,A7,A8,B100,B101,B102,B103,B105,B106,B107,B109,B11,B111,B112,B113,B114,B117,B119,B120,B122,B128,B129,B130,B132,B136,B137,B139,B14,B140,B17,B22,B23,B24,B25,B26,B27,B28,B3,B30,B33,B35,B38,B39,B4,B40,B42,B43,B44,B45,B46,B48,B49,B50,B51,B53,B54,B56,B59,B6,B60,B63,B64,B65,B66,B68,B69,B7,B71,B72,B73,B76,B79,B8,B83,B84,B85,B87,B89,B90,B91,B92,B93,B94,B96,B97,C10,C11,C12,C13,C14,C15,C16,C18,C19,C2,C21,C24,C25,C26,C27,C29,C3,C31,C32,C33,C39,C4,C40,C42,C45,C49,C5,C50,C51,C52,C53,C54,C55,C57,C58,C59,C6,C62,C64,C65,C66,C67,C68,C69,C7,C70,C71,C75,C76,C77,C78,C79,C80,C81,C82,C83,C85,C9,D1,D10,D11,D2,D5,D6,D8
`Chr4:51608807`	`T`	`TG`	1bp_insertion	frameshift_variant	1	B137
`Chr4:51608807`	`T`	`TG`	1bp_insertion	CDS_variant	1	B137

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_057809114.1

259 aa

130

259

RWP-RK

PF02042 RWP-RK 121-210 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057809114.1`	Pfam	`PF02042`	RWP-RK	Domain	121	210	1.6e-28	99.3	RWP-RK 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_057953131.1
ATGGAGATTACCGAGTCTCTCAACATGGGATGGTCAAAATACAATCAAGCGCTCGCAACAATTCCCAAAGAAGACTACGACGATGTTTTCTCCATCCCATCCCACACTTCCACCACTCGATTGAGTGGAATTCTTGGTTTTCATGGCTACGAGTTTGGGATGGAAGAAACAGTTGTCGAAGTTATCTTGAGCGATCCTGGGAGTGTATTTTTGGATGACGGAGTGCAGGTTCAACAGAAGCGCAGAAAGCTGCTTCTGTT...

CDS

1 records

Download CDS FASTA

LOC131023588
ATGGAGATTACCGAGTCTCTCAACATGGGATGGTCAAAATACAATCAAGCGCTCGCAACAATTCCCAAAGAAGACTACGACGATGTTTTCTCCATCCCATCCCACACTTCCACCACTCGATTGAGTGGAATTCTTGGTTTTCATGGCTACGAGTTTGGGATGGAAGAAACAGTTGTCGAAGTTATCTTGAGCGATCCTGGGAGTGTATTTTTGGATGACGGAGTGCAGGTTCAACAGAAGCGCAGAAAGCTGCTTCTGTT...

Protein

1 records

Download Protein FASTA

XP_057809114.1
MEITESLNMGWSKYNQALATIPKEDYDDVFSIPSHTSTTRLSGILGFHGYEFGMEETVVEVILSDPGSVFLDDGVQVQQKRRKLLLLDYNINGATINDDKLLIIGEDKRGIKRSLEEEEDGTKTSKKLTRQMISQYFYMPITQAARELNVGLTLLKKRCRELGIRRWPHRKLMSLQTLIKNVQEFGKEEGEGKLQESLEILEQEKKLMEEIPDLQLEDKTKRLRQAFFKANYKKRKLMGRIDSSSKSVAPTSGCDVCIA

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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