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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

SmilChr03G000914

Chromosome: Chr03 Coordinates: 10461479-10467262 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr03G000914
NameSmilChr03G000914
Descriptionprobable disease resistance protein At1g58602
Chromosome / SeqIDChr03 / NC_080389.1
Coordinates and Strand10461479 - 10467262 / +

ID Mapping

NCBI Gene IDLOC131017507
GeneID131017507
locus_tag-
NCBI NameLOC131017507
Original queryLOC131017507

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Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionprobable disease resistance protein At1g58602
Productprobable disease resistance protein At1g58602
ArabidopsisAT5G35450 (AT5G35450)
Disease resistance protein (CC-NBS-LRR class) family [Source:NCBI gene (formerly Entrezgene);Acc:833508]
identity=28.8; qcov=0.91; evalue=9.93e-66; confidence=low
RiceOs10g0358200
-
identity=26.7; qcov=0.938; evalue=1.15e-57; confidence=low
GOGO:0005515 (protein binding); GO:0043531 (ADP binding); GO:0098542 (defense response to other organism)
KEGG-
PfamPF00931 (NB-ARC); PF13855 (LRR_8); PF23598 (LRR_14)
InterPro-
eggNOG-
NRGeneID:131017507

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cell membrane 细胞膜 0.60000 XP_057802246.1
2 Cytosol 细胞质基质 0.40000 XP_057802246.1
3 Cytoplasm 细胞质 0.20000 XP_057802246.1
4 Nucleus 细胞核 0.00000 XP_057802246.1
5 Chromosome 染色体 0.00000 XP_057802246.1

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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
Chr3:10464234 G A EMS_canonical_SNV CDS_variant 4 A1,B2,C37,D4
Chr3:10464274 G A EMS_canonical_SNV CDS_variant 3 A2,B132,C22
Chr3:10464309 AGG A 2bp_deletion frameshift_variant 1 A25
Chr3:10464309 AGG A 2bp_deletion CDS_variant 1 A25
Chr3:10464312 ATG * 2bp_deletion CDS_variant 3 B109,B55,C31
Chr3:10464341 G A EMS_canonical_SNV CDS_variant 1 C60
Chr3:10464377 G A EMS_canonical_SNV CDS_variant 2 B101,B82
Chr3:10464382 C T EMS_canonical_SNV CDS_variant 1 D11
Chr3:10464406 G A EMS_canonical_SNV CDS_variant 1 B109
Chr3:10464411 G A EMS_canonical_SNV CDS_variant 4 A8,B31,B48,B67
Chr3:10464439 G A EMS_canonical_SNV CDS_variant 4 B35,C10,C21,C8
Chr3:10464480 TA T 1bp_deletion frameshift_variant 1 A18

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_057802246.1
874 aa
N
1
437
874
NB-ARC
LRR_14
LRR_8
C
PF00931 NB-ARC 185-344 aa PF23598 LRR_14 560-858 aa PF13855 LRR_8 584-638 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057802246.1 Pfam PF00931 NB-ARC Domain 185 344 2.3e-26 93.1 NB-ARC domain
XP_057802246.1 Pfam PF23598 LRR_14 Repeat 560 858 5.1e-36 124.9 Leucine-rich repeat region
XP_057802246.1 Pfam PF13855 LRR_8 Repeat 584 638 1.2e-11 44.9 Leucine rich repeat

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_057946263.1
AATAATACTTAGAAAGATTCCAACTGCCTAAGCCACCAAAACCTTTTATATATATTCCGTTGTAACAGAAGACTTTTGGAATCATATATGCAAAGACAAAAGCAAAAGCTAAGGAAAAGCGAGGATTGATTCGCAAAGTAGATCAAGACGAGTGAGAAAGAAGAATCACAAAAAGAGCAATTTGGTCGAAGCTCCAACATGTCGGAGGCCCTCCTCTTGTCGCTGATACAGAAGCTGGAAAATTATCGAGGGTACAATTC...

CDS

1 records

Download CDS FASTA
LOC131017507
ATGTCGGAGGCCCTCCTCTTGTCGCTGATACAGAAGCTGGAAAATTATCGAGGGTACAATTCCCCCTCAAATGAGAATGAAAGAAATGAGGATAATACAGATGATGATGAAACAGATGAGGATGAGGATGACGATGAAACAGATGATGATGATGACGATGATGATGAAACAGATGAGGGTGAGGATGAAACAGATGACGAGGTTGAAACAGAAGAGGAAATGGGAAGGGTAACTAAAGAGATGAGAGAGATTCTGGATAT...

Protein

1 records

Download Protein FASTA
XP_057802246.1
MSEALLLSLIQKLENYRGYNSPSNENERNEDNTDDDETDEDEDDDETDDDDDDDDETDEGEDETDDEVETEEEMGRVTKEMREILDIVRDKKLEEGRTLNFFVSDLVDVAADALHHSKKRKTNQWKYESIHSWIAEIQTQMLKFGDDGAETESNIRSSENNYDKYVVGLDEDVKMLLHTKIIKAKQYNSWTVLLKGMAGTGKTTLAREIYDHPTVVKHFERRAWVSNSAYFTMKELLIKLIQQVVPQKLRKSSLLENMDN...

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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