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

`SmilChr04G000469`

Chromosome: Chr04 Coordinates: 5018342-5019145 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr04G000469`
Name	SmilChr04G000469
Description	uncharacterized SmilChr04G000469
Chromosome / SeqID	Chr04 / NC_080390.1
Coordinates and Strand	5018342 - 5019145 / `+`

ID Mapping

NCBI Gene ID	`LOC131022888`
GeneID	`131022888`
locus_tag	`-`
NCBI Name	`LOC131022888`
Original query	`LOC131022888`

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Functional Annotation

Source	GFF basic annotation; Arabidopsis/Rice homolog
Description	DNA binding protein [Source:NCBI gene (formerly Entrezgene);Acc:823922]; symbol=AT3G47680; hit=AT3G47680; species=arabidopsis; confidence=low
Product	DNA binding protein [Source:NCBI gene (formerly Entrezgene);Acc:823922]; symbol=AT3G47680; hit=AT3G47680; species=arabidopsis; confidence=low
Arabidopsis	`AT3G47680` (AT3G47680) DNA binding protein [Source:NCBI gene (formerly Entrezgene);Acc:823922] identity=28.1; qcov=1; evalue=1.75e-11; confidence=low
Rice	`Os12g0169300` - identity=27.4; qcov=0.427; evalue=1.96e-07; confidence=low
GO	-
KEGG	-
Pfam	-
InterPro	-
eggNOG	-
NR	GeneID:131022888

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057808415.1`
2	Chromosome	染色体	0.00000	`XP_057808415.1`
3	Centromere	着丝粒	0.00000	`XP_057808415.1`
4	Chromatin	染色质	0.00000	`XP_057808415.1`
5	Telomere	端粒	0.00000	`XP_057808415.1`

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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
`Chr4:5018355`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	C83
`Chr4:5018377`	`A`	`ACG`	2bp_insertion	frameshift_variant	34	A10,A25,A7,B110,B119,B121,B128,B131,B136,B15,B22,B26,B27,B29,B36,B4,B40,B42,B52,B57,B60,B62,B66,B72,B81,B99,C19,C30,C42,C50,C54,C57,C60,D7
`Chr4:5018378`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	B100,B118,B16,B35,C30
`Chr4:5018397`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	C37,C80
`Chr4:5018409`	`G`	`A`	EMS_canonical_SNV	stop_gained	4	A19,B114,B39,B98
`Chr4:5018409`	`G`	`A`	EMS_canonical_SNV	CDS_variant	4	A19,B114,B39,B98
`Chr4:5018414`	`C`	`T`	EMS_canonical_SNV	stop_gained	68	A11,A13,A14,A15,A19,A21,A25,A3,A7,A8,B115,B120,B123,B129,B133,B137,B18,B24,B25,B26,B28,B3,B30,B32,B46,B50,B53,B6,B62,B66,B68,B69,B71,B73,B76,B78,B8,B85,B86,B93,C15,C16,C24,C25,C28,C31,C32,C34,C4,C41,C48,C49,C58,C6,C61,C62,C63,C67,C68,C72,C78,C79,C82,C9,D2,D3,D4,D6
`Chr4:5018417`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	A19,B114,B39
`Chr4:5018467`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B64
`Chr4:5018487`	`T`	`TA`	1bp_insertion	frameshift_variant	3	B67,C30,C76
`Chr4:5018487`	`T`	`TA`	1bp_insertion	CDS_variant	3	B67,C30,C76
`Chr4:5018493`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	A1,B106

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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_057952432.1
ATGTCATCTTGGTGTATCGCTAGTGAAGATAATGTACATGGCAGACATCAAAAAGGTTTATCTCTGTGGACACGAGTTCACAAGTTGTATGAACAAGCTCAAGCAGATAATCCAGAAGAACTCAGCGAAAGAAATGTCGATATGATAAAAGGTCGTTGGAAACGACTAAATGAAAATGGAAACAAGTGGCTTGCTGCTTGCAAGGAAGCATATAGTCGGAAAAGGAGTGGAATGAGCCAAGCAGATGTTGAAAAAGAAGC...

CDS

1 records

Download CDS FASTA

LOC131022888
ATGTCATCTTGGTGTATCGCTAGTGAAGATAATGTACATGGCAGACATCAAAAAGGTTTATCTCTGTGGACACGAGTTCACAAGTTGTATGAACAAGCTCAAGCAGATAATCCAGAAGAACTCAGCGAAAGAAATGTCGATATGATAAAAGGTCGTTGGAAACGACTAAATGAAAATGGAAACAAGTGGCTTGCTGCTTGCAAGGAAGCATATAGTCGGAAAAGGAGTGGAATGAGCCAAGCAGATGTTGAAAAAGAAGC...

Protein

1 records

Download Protein FASTA

XP_057808415.1
MSSWCIASEDNVHGRHQKGLSLWTRVHKLYEQAQADNPEELSERNVDMIKGRWKRLNENGNKWLAACKEAYSRKRSGMSQADVEKEAHAIYNETCGCRFQDLVVFNEVMYEVSNEESGGSSKRSRTSEHGDYSAPSNPETPTSDCSTIPRPIGRDKAKRKGKGKISESSSNNEVVAEIRALRLTKDNEVEAMTKLHEARVDLELKKEQRKAIKMKEVMLNTLLAKDNLSPEDEEMKRRLIEIVFRQSM

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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