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

`SmilChr04G001476`

Chromosome: Chr04 Coordinates: 24201367-24202831 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr04G001476`
Name	SmilChr04G001476
Description	protein FAR1-RELATED SEQUENCE 5-like
Chromosome / SeqID	Chr04 / NC_080390.1
Coordinates and Strand	24201367 - 24202831 / `-`

ID Mapping

NCBI Gene ID	`LOC131023184`
GeneID	`131023184`
locus_tag	`-`
NCBI Name	`LOC131023184`
Original query	`SmilChr04G001476`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	protein FAR1-RELATED SEQUENCE 5-like
Product	protein FAR1-RELATED SEQUENCE 5-like
Arabidopsis	`AT4G38180` (FRS5) FAR1-related sequence 5 [Source:NCBI gene (formerly Entrezgene);Acc:829974] identity=29; qcov=0.732; evalue=2.04e-47; confidence=low
Rice	`Os06g0166100` - identity=29.8; qcov=0.829; evalue=5.11e-59; confidence=low
GO	GO:0006355 (regulation of DNA-templated transcription); GO:0008270 (zinc ion binding)
KEGG	-
Pfam	PF04434 (SWIM); PF10551 (MULE)
InterPro	-
eggNOG	-
NR	GeneID:131023184

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057808712.1`
2	Chromosome	染色体	0.00000	`XP_057808712.1`
3	Centromere	着丝粒	0.00000	`XP_057808712.1`
4	Chromatin	染色质	0.00000	`XP_057808712.1`
5	Telomere	端粒	0.00000	`XP_057808712.1`

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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
`Chr4:24201373`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	B127,B135,B40,B7,B85
`Chr4:24201393`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	B85,C36
`Chr4:24201405`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C14
`Chr4:24201456`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	A23,B132,C78
`Chr4:24201462`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B131
`Chr4:24201470`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	C14,C42
`Chr4:24201471`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	A23
`Chr4:24201559`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	B50,C14
`Chr4:24201570`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B122
`Chr4:24201571`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B108,B124,C76
`Chr4:24201612`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	D7
`Chr4:24201620`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C46

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_057808712.1

462 aa

231

462

MULE

SWIM

PF10551 MULE 2-65 aa PF04434 SWIM 261-288 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057808712.1`	Pfam	`PF10551`	MULE	Domain	2	65	8.1e-16	58.9	MULE transposase domain
`XP_057808712.1`	Pfam	`PF04434`	SWIM	Domain	261	288	0.0001	22.5	SWIM zinc finger

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_057952729.1
ATGTTTGCAGTTGGCTTCTTGACCAATGAAAGAAGTGAGTCTTACGTGTGGTTGTTTAAAACGTTCCTCGAGGCTATGTATCAAAAAGAGCCGTCAATAATATTCTCAGACCAAGATCAGGCCCTTATGAATGGTGTTGATCACACATTTCGCGAAGCAGCACACAGACTTTGTCAGTGGCATGTTAACAAAAATGCCACGAAGCAATTTGGGCAACTAAACAATGATAAGGGGTTCAAGACTTTGTGGTACCAATGCAT...

CDS

1 records

Download CDS FASTA

LOC131023184
ATGTTTGCAGTTGGCTTCTTGACCAATGAAAGAAGTGAGTCTTACGTGTGGTTGTTTAAAACGTTCCTCGAGGCTATGTATCAAAAAGAGCCGTCAATAATATTCTCAGACCAAGATCAGGCCCTTATGAATGGTGTTGATCACACATTTCGCGAAGCAGCACACAGACTTTGTCAGTGGCATGTTAACAAAAATGCCACGAAGCAATTTGGGCAACTAAACAATGATAAGGGGTTCAAGACTTTGTGGTACCAATGCAT...

Protein

1 records

Download Protein FASTA

XP_057808712.1
MFAVGFLTNERSESYVWLFKTFLEAMYQKEPSIIFSDQDQALMNGVDHTFREAAHRLCQWHVNKNATKQFGQLNNDKGFKTLWYQCMNGCESEEEFETTWLSLIVEHNLSENRWFSTMYNLRKRWSSAFTRDKFFGGLHATSRSEVTNKVIKDLCSSTSTVYDFVIGFERILKNWRQTEFEEDTLCRGTPGMFVQQTGILVQVAELCTKSIFRSFEFESLHSVSVKMTHEPPDLNDEVLVFKVFSRSAVTGFRTVRFNQE...

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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