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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

SmilChr01G000037

Chromosome: Chr01 Coordinates: 604301-606337 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr01G000037
NameSmilChr01G000037
Descriptionpectinesterase 4-like
Chromosome / SeqIDChr01 / NC_080387.1
Coordinates and Strand604301 - 606337 / +

ID Mapping

NCBI Gene IDLOC131007165
GeneID131007165
locus_tag-
NCBI NameLOC131007165
Original querySmilChr01G000037

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; KEGG smil; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionpectinesterase 4-like
Productpectinesterase 4-like
ArabidopsisAT2G47030 (VGDH1)
Plant invertase/pectin methylesterase inhibitor superfamily [Source:NCBI gene (formerly Entrezgene);Acc:819317]
identity=40.3; qcov=1.06; evalue=1.85e-140; confidence=medium
RiceOs04g0458900 (OsPME14)
-
identity=43; qcov=0.949; evalue=1.6e-144; confidence=medium
GOGO:0030599 (pectinesterase activity); GO:0042545 (cell wall modification); GO:0046910 (pectinesterase inhibitor activity)
KEGGsmil00040 (Pentose and glucuronate interconversions - Salvia miltiorrhiza (redroot sage)); smil01100 (Metabolic pathways - Salvia miltiorrhiza (redroot sage))
PfamPF01095 (Pectinesterase); PF04043 (PMEI)
InterPro-
eggNOG-
NRGeneID:131007165

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cell wall 细胞壁 0.80000 XP_057790312.1
2 Cell membrane 细胞膜 0.60000 XP_057790312.1
3 Nucleus 细胞核 0.00000 XP_057790312.1
4 Chromosome 染色体 0.00000 XP_057790312.1
5 Centromere 着丝粒 0.00000 XP_057790312.1

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
Chr1:604540 G A EMS_canonical_SNV CDS_variant 1 C35
Chr1:604609 C T EMS_canonical_SNV CDS_variant 3 B65,B71,C48
Chr1:604777 G A EMS_canonical_SNV CDS_variant 2 B56,B96
Chr1:604933 C T EMS_canonical_SNV CDS_variant 1 B99
Chr1:604970 C T EMS_canonical_SNV CDS_variant 2 B22,C26
Chr1:604981 G A EMS_canonical_SNV CDS_variant 5 A1,B41,B44,C21,C73
Chr1:604984 C T EMS_canonical_SNV CDS_variant 1 B75
Chr1:605041 G A EMS_canonical_SNV CDS_variant 2 B22,C76
Chr1:605042 G A EMS_canonical_SNV CDS_variant 1 C4
Chr1:605211 G A EMS_canonical_SNV stop_gained 2 B63,C6
Chr1:605211 G A EMS_canonical_SNV CDS_variant 2 B63,C6
Chr1:605255 G A EMS_canonical_SNV CDS_variant 1 B99

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_057790312.1
564 aa
N
1
282
564
PMEI
Pectinesterase
C
PF04043 PMEI 47-194 aa PF01095 Pectinesterase 251-547 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057790312.1 Pfam PF04043 PMEI Domain 47 194 1.5e-24 87.6 Plant invertase/pectin methylesterase inhibitor
XP_057790312.1 Pfam PF01095 Pectinesterase Repeat 251 547 1.3e-108 362.9 Pectinesterase

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_057934329.1
CAACACATTTTATCTCGCCCCTTCCAAACCAGTTCATCTGGTTAAAGTTTCCTTTTTTTTTTCCCCCCCGTTCTTCACTTGAACCCTCCCTTCCCTGAAACCTAATTACCAGGTTTCAGTAAAATTTTAGAAAAATATACAGTAGGGAGGAAATCAAAGTGAAGCAAAAAAAAAAAAATTAAAAAAAATTTAAAATAAGAAAAATAAATAAATATATCAATGGGCGCAGCCAAGATTGCGGTTCCTATAGTGTCGCTGTT...

CDS

1 records

Download CDS FASTA
LOC131007165
ATGGGCGCAGCCAAGATTGCGGTTCCTATAGTGTCGCTGTTGCTGGTGGTGGGAGTGGTGATCGGAGTAGTGGTGGTAATAAAAAGCAACGGCGATGAAGCCCAAGAAGCCAAGAACTTCAAGTTGCCGTCGATGAAGATGGTCACCTCCATTTGCGGCCCAACCGATTACAAGGAAGCCTGCGAGGCCACCCTCCAATCCATTGCCAAGAACGCTTCCGCCACGGCCAATGACTACGTCCGCGCCGTGGTGGAGGCGGC...

Protein

1 records

Download Protein FASTA
XP_057790312.1
MGAAKIAVPIVSLLLVVGVVIGVVVVIKSNGDEAQEAKNFKLPSMKMVTSICGPTDYKEACEATLQSIAKNASATANDYVRAVVEAALKEVNNALAATGKISVDKDKDKYNHVAVEDCKHLLDYAVDMLQASISAAEGGAGDLHERQHELLSWMTAVYAFQTTCTDQIENPEYKAAVQSGMVNATQLTHNAVNIMAELSEMLKLFNVKLPNAGSTLSQRRLLALEEGFPYWFGAAERKLLAKHSGGQLVPDVVVAKDGSG...

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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