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

`SmilChr03G001136`

Chromosome: Chr03 Coordinates: 13087507-13089899 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr03G001136`
Name	SmilChr03G001136
Description	uncharacterized SmilChr03G001136
Chromosome / SeqID	Chr03 / NC_080389.1
Coordinates and Strand	13087507 - 13089899 / `-`

ID Mapping

NCBI Gene ID	`LOC131017534`
GeneID	`131017534`
locus_tag	`-`
NCBI Name	`LOC131017534`
Original query	`SmilChr03G001136`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	confidence=no_hit
Product	confidence=no_hit
Arabidopsis	`-` -
Rice	`-` -
GO	GO:0006508 (proteolysis); GO:0008234 (cysteine-type peptidase activity)
KEGG	-
Pfam	PF02902 (Peptidase_C48)
InterPro	-
eggNOG	-
NR	GeneID:131017534

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Nucleus	细胞核	1.00000	`XP_057802303.1`
2	Nuclear body	核内小体	1.00000	`XP_057802303.1`
3	Nucleoplasm	核质	1.00000	`XP_057802303.1`
4	PML body	PML body	0.80000	`XP_057802303.1`
5	Chromosome	染色体	0.60000	`XP_057802303.1`

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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
`Chr3:13088185`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B35
`Chr3:13088186`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B113
`Chr3:13088717`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B82
`Chr3:13088764`	`C`	`T`	EMS_canonical_SNV	CDS_variant	5	A1,A14,B27,B58,B89
`Chr3:13088850`	`G`	`A`	EMS_canonical_SNV	CDS_variant	5	A1,A14,B27,B89,C77
`Chr3:13088870`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	C17,D1
`Chr3:13088905`	`G`	`A`	EMS_canonical_SNV	stop_gained	3	B16,C13,C74
`Chr3:13088905`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	B16,C13,C74
`Chr3:13088938`	`G`	`A`	EMS_canonical_SNV	stop_gained	1	B73
`Chr3:13088938`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B73
`Chr3:13088945`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C13
`Chr3:13088962`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	B137,B29,C35,C42

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_057802303.1

684 aa

342

684

Peptidase_C48

PF02902 Peptidase_C48 533-673 aa

XP_057802304.1

680 aa

340

680

Peptidase_C48

PF02902 Peptidase_C48 529-669 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057802303.1`	Pfam	`PF02902`	Peptidase_C48	Domain	533	673	6.6e-06	26.8	Ulp1 protease family, C-terminal catalytic domain
`XP_057802304.1`	Pfam	`PF02902`	Peptidase_C48	Domain	529	669	6.5e-06	26.8	Ulp1 protease family, C-terminal catalytic 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

2 records

Download cDNA FASTA

XM_057946321.1
CATGCCCCTGGAGCCCGATGCTGACGATCTGTCGAGTCACTACTTCATATCAGCGCTGACACCGGGCGAACTCTCGGTGAGCTTCAGGCCCCCCGACAACCCATTAGCTCGGGGTGTCCAATTTCCACAGGGCACCGGAGCCCGTGTTGTGGAGGAGCGCGGGGACGAGGAGGATGTACCTAGACAGCCTCGTACGACTCGCAGTCACAGTGTCCGGGGCCCTGTGAGGGATGCTCGACAGCACGAGCCGGCTCGTCATT...

XM_057946320.1
CATGCCCCTGGAGCCCGATGCTGACGATCTGTCGAGTCACTACTTCATATCAGCGCTGACACCGGGCGAACTCTCGGTGAGCTTCAGGCCCCCCGACAACCCATTAGCTCGGGGTGTCCAATTTCCACAGGGCACCGGAGCCCGTGTTGTGGAGGAGCGCGGGGACGAGGAGGATGTACCTAGACAGCCTCGTACGACTCGCAGTCACAGTGTCCGGGGCCCTGTGAGGGATGCTCGACAGCACGAGCCGGCTCGTCATT...

CDS

2 records

Download CDS FASTA

LOC131017534
ATGCCCCTGGAGCCCGATGCTGACGATCTGTCGAGTCACTACTTCATATCAGCGCTGACACCGGGCGAACTCTCGGTGAGCTTCAGGCCCCCCGACAACCCATTAGCTCGGGGTGTCCAATTTCCACAGGGCACCGGAGCCCGTGTTGTGGAGGAGCGCGGGGACGAGGAGGATGTACCTAGACAGCCTCGTACGACTCGCAGTCACAGTGTCCGGGGCCCTGTGAGGGATGCTCGACAGCACGAGCCGGCTCGTCATTC...

Protein

2 records

Download Protein FASTA

XP_057802303.1
MPLEPDADDLSSHYFISALTPGELSVSFRPPDNPLARGVQFPQGTGARVVEERGDEEDVPRQPRTTRSHSVRGPVRDARQHEPARHSVDPGSRPVRDARPHEPARHSVDPGKRPAPHTSSSSSGSRTVSSPSEGEVDRKWVKKTIRQEIKKAFGKFVEKLKSKGKKDRCKKSKHFRVPDSPDDDDQRRSPDPPQPRSPPQRRSPPPSASGPDASEPARHSRSCDDDPRGEEPRHPETQDYDEQWRAMNQSVQGDYTPAEQ...

XP_057802304.1
MPLEPDADDLSSHYFISALTPGELSVSFRPPDNPLARGVQFPQGTGARVVEERGDEEDVPRQPRTTRSHSVRGPVRDARQHEPARHSVDPGSRPVRDARPHEPARHSVDPGKRPAPHTSSSSSGSRTVSSPSEGEVDRKWVKKTIRQEIKKAFGKFVEKLKSKGKKDRCKKSKHFRVPDSPDDDDQRRSPDPPQPRSPPQRRSPPPSASGPDASEPARHSRSCDDDPRGEEPRHPETQDYDEQWRAMNQSVQGDYTPAEQ...

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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