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

`SmilChr01G001224`

Chromosome: Chr01 Coordinates: 24524688-24525548 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr01G001224`
Name	SmilChr01G001224
Description	metalloendoproteinase 1-like
Chromosome / SeqID	Chr01 / NC_080387.1
Coordinates and Strand	24524688 - 24525548 / `-`

ID Mapping

NCBI Gene ID	`LOC131004469`
GeneID	`131004469`
locus_tag	`-`
NCBI Name	`LOC131004469`
Original query	`SmilChr01G001224`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	metalloendoproteinase 1-like
Product	metalloendoproteinase 1-like
Arabidopsis	`AT1G59970` (AT1G59970) Matrixin family protein [Source:NCBI gene (formerly Entrezgene);Acc:842291] identity=42.9; qcov=0.986; evalue=1.07e-64; confidence=medium
Rice	`Os02g0740700` (OsMMP1) - identity=40.9; qcov=0.983; evalue=3.36e-59; confidence=medium
GO	GO:0004222 (metalloendopeptidase activity); GO:0006508 (proteolysis); GO:0008270 (zinc ion binding); GO:0030198 (extracellular matrix organization); GO:0030574 (collagen catabolic process); GO:0031012 (extracellular matrix)
KEGG	-
Pfam	PF00413 (Peptidase_M10); PF01471 (PG_binding_1)
InterPro	-
eggNOG	-
NR	GeneID:131004469

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Secreted	分泌到胞外	0.80000	`XP_057787171.1`
2	Vacuole	液泡	0.20000	`XP_057787171.1`
3	Nucleus	细胞核	0.00000	`XP_057787171.1`
4	Chromosome	染色体	0.00000	`XP_057787171.1`
5	Centromere	着丝粒	0.00000	`XP_057787171.1`

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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
`Chr1:24524804`	`CA`	`C`	1bp_deletion	frameshift_variant	1	D11
`Chr1:24524804`	`CA`	`C`	1bp_deletion	CDS_variant	1	D11
`Chr1:24524852`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B106,B7,C65
`Chr1:24524898`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	A22,B101,B98,C16
`Chr1:24524948`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B30
`Chr1:24524949`	`G`	`A`	EMS_canonical_SNV	CDS_variant	3	B72,C83,D2
`Chr1:24524962`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	A15
`Chr1:24524979`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	C45,C79
`Chr1:24525072`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B131
`Chr1:24525222`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C16
`Chr1:24525225`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C16
`Chr1:24525226`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C16

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_057787171.1

286 aa

143

286

PG_binding_1

Peptidase_M10

PF01471 PG_binding_1 45-107 aa PF00413 Peptidase_M10 139-284 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057787171.1`	Pfam	`PF01471`	PG_binding_1	Domain	45	107	1.4e-11	45.1	Putative peptidoglycan binding domain
`XP_057787171.1`	Pfam	`PF00413`	Peptidase_M10	Domain	139	284	1.5e-41	142.7	Matrixin

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_057931188.1
ATGGCGAGGGAAACCACTCTTCTATTCCTCCTTCTCTGCAGCTCATCTCTTGCATCTCCACACCACCATTATTCCGCCATGGATTTCCTCCAACCCTTGCTCGGAACCCAAAAAGGAAACCTAACCCAAGGCCTCTCCAAACTCAAGAATCACCTCTCCCGCCTCGGATACCTCACCACCATTCACAAACCCTCCTCCTCTTCACCACCACCACACGATGATCTCTTCGACGGCGCTCTCCAACAAGCTGTAACAGACTA...

CDS

1 records

Download CDS FASTA

LOC131004469
ATGGCGAGGGAAACCACTCTTCTATTCCTCCTTCTCTGCAGCTCATCTCTTGCATCTCCACACCACCATTATTCCGCCATGGATTTCCTCCAACCCTTGCTCGGAACCCAAAAAGGAAACCTAACCCAAGGCCTCTCCAAACTCAAGAATCACCTCTCCCGCCTCGGATACCTCACCACCATTCACAAACCCTCCTCCTCTTCACCACCACCACACGATGATCTCTTCGACGGCGCTCTCCAACAAGCTGTAACAGACTA...

Protein

1 records

Download Protein FASTA

XP_057787171.1
MARETTLLFLLLCSSSLASPHHHYSAMDFLQPLLGTQKGNLTQGLSKLKNHLSRLGYLTTIHKPSSSSPPPHDDLFDGALQQAVTDYQSFFSLPPTGALDAATLAHMGKPRCGVRDVSPPNTTAHYTFFPGQPKWPAGRRNLTYSFPPGTRADAHKAILDATNIWASVSPLKFRYTKDYSAADIKISFQSRDHGDGSAFDGSGGILAHAYAPTDGRLHFDGDERWVDGVVGGAFDLQTVGLHELGHVLGLGHSQDGGAVM...

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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