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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

SmilChr03G000335

Chromosome: Chr03 Coordinates: 3797148-3812109 Strand: - Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr03G000335
NameSmilChr03G000335
Descriptionputative inactive disease susceptibility protein LOV1
Chromosome / SeqIDChr03 / NC_080389.1
Coordinates and Strand3797148 - 3812109 / -

ID Mapping

NCBI Gene IDLOC131018115
GeneID131018115
locus_tag-
NCBI NameLOC131018115
Original querySmilChr03G000335

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionputative inactive disease susceptibility protein LOV1
Productputative inactive disease susceptibility protein LOV1
ArabidopsisAT5G35450 (AT5G35450)
Disease resistance protein (CC-NBS-LRR class) family [Source:NCBI gene (formerly Entrezgene);Acc:833508]
identity=30; qcov=0.838; evalue=4.15e-65; confidence=low
RiceOs01g0547000
-
identity=26.2; qcov=0.859; evalue=6.66e-63; confidence=low
GOGO:0043531 (ADP binding); GO:0098542 (defense response to other organism)
KEGG-
PfamPF00931 (NB-ARC); PF13401 (AAA_22); PF23559 (WHD_DRP); PF23598 (LRR_14)
InterPro-
eggNOG-
NRGeneID:131018115

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cell membrane 细胞膜 1.00000 XP_057802821.1
2 Cytoplasm 细胞质 0.20000 XP_057802821.1
3 Nucleus 细胞核 0.00000 XP_057802821.1
4 Chromosome 染色体 0.00000 XP_057802821.1
5 Centromere 着丝粒 0.00000 XP_057802821.1

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
Chr3:3797289 G A EMS_canonical_SNV CDS_variant 3 B12,B35,B55
Chr3:3797307 C T EMS_canonical_SNV CDS_variant 3 B12,B35,B55
Chr3:3797319 C T EMS_canonical_SNV CDS_variant 3 B12,B35,B55
Chr3:3797332 C T EMS_canonical_SNV CDS_variant 3 B12,B35,B55
Chr3:3797473 C T EMS_canonical_SNV CDS_variant 5 B21,B91,B94,C26,C48
Chr3:3797505 C T EMS_canonical_SNV CDS_variant 5 B21,B91,B94,C26,C48
Chr3:3797521 AC A 1bp_deletion frameshift_variant 2 B94,C48
Chr3:3797521 AC A 1bp_deletion CDS_variant 2 B94,C48
Chr3:3797544 A AT 1bp_insertion frameshift_variant 5 B21,B91,B94,C26,C48
Chr3:3797544 A AT 1bp_insertion CDS_variant 5 B21,B91,B94,C26,C48
Chr3:3797549 C CG 1bp_insertion frameshift_variant 12 B107,B122,B22,B54,B78,B9,B93,B99,C22,C53,C60,D2
Chr3:3797550 G GGC 2bp_insertion frameshift_variant 3 B12,B35,B55

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_057802821.1
882 aa
N
1
441
882
NB-ARC
AAA_22
WHD_DRP
LRR_14
C
PF00931 NB-ARC 190-343 aa PF13401 AAA_22 191-284 aa PF23559 WHD_DRP 427-498 aa PF23598 LRR_14 560-858 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057802821.1 Pfam PF00931 NB-ARC Domain 190 343 5.8e-29 101.6 NB-ARC domain
XP_057802821.1 Pfam PF13401 AAA_22 Domain 191 284 4.6e-07 30.9 AAA domain
XP_057802821.1 Pfam PF23559 WHD_DRP Domain 427 498 2.4e-06 28.2 Disease resistance protein Winged helix domain
XP_057802821.1 Pfam PF23598 LRR_14 Repeat 560 858 5.4e-36 124.8 Leucine-rich repeat region

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_057946838.1
ATGTGTGCCTCGCTAGTCGCTATAACCTTTGGACTAAAATATGAGGGGGGAAATGAAAAGTCGGTTTTCGAAAGGCTGGAGTTTTTGCTGACGAGTGAGGAGGCAGGTTTGCGGCCAGACGTTGAGATAGAAGTGAAAGGGCTACAATATGATCTCAAATTGATGCAGGCTTTCCTCACCCGCAGCCGCAGCAGCTATATATTTGAAAGGAATGATTTGAGATCTAAACTGATGAAGATTGCCAACGGAACCGAAGACAT...

CDS

1 records

Download CDS FASTA
LOC131018115
ATGTGTGCCTCGCTAGTCGCTATAACCTTTGGACTAAAATATGAGGGGGGAAATGAAAAGTCGGTTTTCGAAAGGCTGGAGTTTTTGCTGACGAGTGAGGAGGCAGGTTTGCGGCCAGACGTTGAGATAGAAGTGAAAGGGCTACAATATGATCTCAAATTGATGCAGGCTTTCCTCACCCGCAGCCGCAGCAGCTATATATTTGAAAGGAATGATTTGAGATCTAAACTGATGAAGATTGCCAACGGAACCGAAGACAT...

Protein

1 records

Download Protein FASTA
XP_057802821.1
MCASLVAITFGLKYEGGNEKSVFERLEFLLTSEEAGLRPDVEIEVKGLQYDLKLMQAFLTRSRSSYIFERNDLRSKLMKIANGTEDIINTFCRGNSRAMMGYRYYGTLTAADQALHVRLFCKELSFIRDRLKRCKSRYGVVGVENPIMISEHVGGQQILPFWEGVVLGLEEDVQLLLRNVIFNEAPGLYTCCITGMAGIGKTTLARELYHHPSMDVFDRRAWVRVSNKSSQEEILRELIRELQSFGKDRFIDWYRIDSMN...

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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