Red Sage Omics Salvia miltiorrhiza reference portal
Home Gene Search ID Map Annotation Domains Pfam Tools PPI Subcellular Expression Co-expression Homology GO/KEGG TFBS TF Targets EMS Variants JBrowse BLAST Download About Help
Data
ID Map Annotation Functional Search Specialized Metabolism Literature Evidence Domains Pfam Homology
Tools
Genome Tools Primer Design HR Primer Design Translate BLAST PPI Subcellular Co-expression GO/KEGG Functional Search
Regulation
TFBS TF Targets EMS Variants
Help
About Help Resources and Release
中文 EN

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.
Examples

Resolved gene

SmilChr03G001125

Chromosome: Chr03 Coordinates: 12952551-12958573 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr03G001125
NameSmilChr03G001125
Descriptionuncharacterized SmilChr03G001125
Chromosome / SeqIDChr03 / NC_080389.1
Coordinates and Strand12952551 - 12958573 / +

ID Mapping

NCBI Gene IDLOC131017527
GeneID131017527
locus_tag-
NCBI NameLOC131017527
Original querySmilChr03G001125

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionmitochondrial substrate carrier family protein [Source:NCBI gene (formerly Entrezgene);Acc:818153]; symbol=SAMTL; hit=AT2G35800; species=arabidopsis; confidence=high
Productmitochondrial substrate carrier family protein [Source:NCBI gene (formerly Entrezgene);Acc:818153]; symbol=SAMTL; hit=AT2G35800; species=arabidopsis; confidence=high
ArabidopsisAT2G35800 (SAMTL)
mitochondrial substrate carrier family protein [Source:NCBI gene (formerly Entrezgene);Acc:818153]
identity=60.9; qcov=1.03; evalue=0; confidence=high
RiceOs11g0103700
-
identity=71.4; qcov=0.676; evalue=0; confidence=high
GOGO:0000095 (S-adenosyl-L-methionine transmembrane transporter activity); GO:0005509 (calcium ion binding); GO:0005743 (mitochondrial inner membrane)
KEGG-
PfamPF00153 (Mito_carr)
InterPro-
eggNOG-
NRGeneID:131017527

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Chloroplast 叶绿体 1.00000 XP_057802294.1
2 Chloroplast membrane 叶绿体膜 1.00000 XP_057802294.1
3 Mitochondrion 线粒体 0.20000 XP_057802294.1
4 Nucleus 细胞核 0.00000 XP_057802294.1
5 Chromosome 染色体 0.00000 XP_057802294.1

Open subcellular search

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
Chr3:12953339 G A EMS_canonical_SNV CDS_variant 1 D11
Chr3:12953429 C T EMS_canonical_SNV CDS_variant 4 A10,B48,C45,D5
Chr3:12953451 G A EMS_canonical_SNV CDS_variant 4 A10,B48,C45,D5
Chr3:12953528 C T EMS_canonical_SNV CDS_variant 1 B104
Chr3:12953605 G A EMS_canonical_SNV CDS_variant 2 B104,D11
Chr3:12953739 C T EMS_canonical_SNV CDS_variant 2 B111,C53
Chr3:12953960 AT A 1bp_deletion frameshift_variant 1 A19
Chr3:12953960 AT A 1bp_deletion CDS_variant 1 A19
Chr3:12953980 G A EMS_canonical_SNV CDS_variant 4 B104,B111,C53,D11
Chr3:12954002 G A EMS_canonical_SNV CDS_variant 1 C77
Chr3:12954054 G A EMS_canonical_SNV CDS_variant 1 B104
Chr3:12954068 G A EMS_canonical_SNV CDS_variant 2 B104,D11

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_057802294.1
823 aa
N
1
412
823
Mito_carr
Mito_carr
Mito_carr
C
PF00153 Mito_carr 545-625 aa PF00153 Mito_carr 638-717 aa PF00153 Mito_carr 723-812 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057802294.1 Pfam PF00153 Mito_carr Repeat 545 625 7.1e-44 148.2 Mitochondrial carrier protein
XP_057802294.1 Pfam PF00153 Mito_carr Repeat 638 717 7.1e-44 148.2 Mitochondrial carrier protein
XP_057802294.1 Pfam PF00153 Mito_carr Repeat 723 812 7.1e-44 148.2 Mitochondrial carrier protein

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_057946311.1
TTTTTTTTTTTCTTTTCTTTATCTGTATTAAATGTGAGATACTAAAATCGGAAAATAGCCTCACTGCTAATTTGCTACCGCCTTTGTTTGTTGTTCTTCATTATCACCATTCAGATTCCTCAGATTTGCTTCAAGAATTGCAAATTTGTTTTTGAAAAATACCTCCTTGAAATATTATTAGCCTCACAAATTTCCAGAACAATTTCTAGTGAAATTATATTTTAACAGGAGGCAGAAATCCCACAAAATATACCTCATTA...

CDS

1 records

Download CDS FASTA
LOC131017527
ATGGTGGTGTCAGGGAATGACCCGTTGGAGTCGTTTTTGAATTCGATTCAAGTTGTTAGGAACGCCTTTTCTCCTATAGAATCGAATTTTCAGAAGGTTACCAAAAATTTCGAGCATTGTTTTAACGGGGCTTCAAAGAATCGGAACTTGAACGGTAGGTTGGATGATGCTAGTAATGAGGTGGTGGCAGCTCAGTTGGATTTGAAGAAGAAGAGTGGTCAACATGTTGATGGAAATGGCGGTGATGGGAGGAAAAAGAG...

Protein

1 records

Download Protein FASTA
XP_057802294.1
MVVSGNDPLESFLNSIQVVRNAFSPIESNFQKVTKNFEHCFNGASKNRNLNGRLDDASNEVVAAQLDLKKKSGQHVDGNGGDGRKKRVPIKIFVGVFKDKGVSSVHSNVHVSRDDNVNLSRKGLKERYGYDTGGNEDKSFHGNCLHLDVALSFLINGFVQALPRSFKHEKRQVHKMSNADKESRVKAEVKSRVGSEIKQELKVKEGKDLPFEYFIGFVVDQFNNFPKFDVGVQENECKSAECKPSPAPVNQFDHFKAFFS...

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.

Download upstream Download downstream Download upstream + gene + downstream

JBrowse

Open genome browser