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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

SmilChr05G004196

Chromosome: Chr05 Coordinates: 55830520-55832866 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr05G004196
NameSmilChr05G004196
DescriptionLRR receptor-like serine/threonine-protein kinase FLS2
Chromosome / SeqIDChr05 / NC_080391.1
Coordinates and Strand55830520 - 55832866 / +

ID Mapping

NCBI Gene IDLOC131025249
GeneID131025249
locus_tag-
NCBI NameLOC131025249
Original querySmilChr05G004196

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
DescriptionLRR receptor-like serine/threonine-protein kinase FLS2
ProductLRR receptor-like serine/threonine-protein kinase FLS2
ArabidopsisAT5G23400 (AT5G23400)
Leucine-rich repeat (LRR) family protein [Source:NCBI gene (formerly Entrezgene);Acc:832405]
identity=33.9; qcov=0.977; evalue=3.82e-91; confidence=low
RiceOs04g0618700 (Os-FLS2)
-
identity=34.5; qcov=1.01; evalue=4.36e-85; confidence=low
GOGO:0005515 (protein binding)
KEGG-
PfamPF00560 (LRR_1); PF08263 (LRRNT_2); PF12799 (LRR_4); PF13516 (LRR_6); PF13855 (LRR_8); PF23598 (LRR_14)
InterPro-
eggNOG-
NRGeneID:131025249

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cell membrane 细胞膜 1.00000 XP_057810901.1
2 Nucleus 细胞核 0.00000 XP_057810901.1
3 Chromosome 染色体 0.00000 XP_057810901.1
4 Centromere 着丝粒 0.00000 XP_057810901.1
5 Chromatin 染色质 0.00000 XP_057810901.1

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
Chr5:55830820 G A EMS_canonical_SNV CDS_variant 1 B104
Chr5:55830864 C T EMS_canonical_SNV CDS_variant 1 B53
Chr5:55830968 G A EMS_canonical_SNV CDS_variant 2 B115,B37
Chr5:55831035 C T EMS_canonical_SNV CDS_variant 1 B61
Chr5:55831141 GCT G 2bp_deletion frameshift_variant 1 B8
Chr5:55831141 GCT G 2bp_deletion CDS_variant 1 B8
Chr5:55831150 G GT 1bp_insertion frameshift_variant 1 B80
Chr5:55831150 G GT 1bp_insertion CDS_variant 1 B80
Chr5:55831171 G A EMS_canonical_SNV CDS_variant 3 B110,B93,C53
Chr5:55831243 G A EMS_canonical_SNV CDS_variant 2 B117,C8
Chr5:55831294 C T EMS_canonical_SNV CDS_variant 1 B104
Chr5:55831320 G A EMS_canonical_SNV CDS_variant 1 C53

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_057810901.1
640 aa
N
1
320
640
LRRNT_2
LRR_8
LRR_1
LRR_4
LRR_1
LRR_8
LRR_1
LRR_8
LRR_1
LRR_4
LRR_1
LRR_14
LRR_1
LRR_8
LRR_1
LRR_1
LRR_6
LRR_1
LRR_1
LRR_8
LRR_1
LRR_1
LRR_1
LRR_1
C
PF08263 LRRNT_2 25-64 aa PF13855 LRR_8 128-188 aa PF00560 LRR_1 130-151 aa PF12799 LRR_4 153-188 aa PF00560 LRR_1 154-175 aa PF13855 LRR_8 177-236 aa PF00560 LRR_1 178-199 aa PF13855 LRR_8 200-260 aa PF00560 LRR_1 201-223 aa PF12799 LRR_4 201-236 aa PF00560 LRR_1 225-247 aa PF23598 LRR_14 275-482 aa PF00560 LRR_1 276-297 aa PF13855 LRR_8 278-334 aa PF00560 LRR_1 299-321 aa PF00560 LRR_1 323-345 aa PF13516 LRR_6 369-382 aa PF00560 LRR_1 371-391 aa PF00560 LRR_1 422-443 aa PF13855 LRR_8 422-480 aa PF00560 LRR_1 498-513 aa PF00560 LRR_1 524-545 aa PF00560 LRR_1 548-568 aa PF00560 LRR_1 595-611 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057810901.1 Pfam PF08263 LRRNT_2 Family 25 64 3.1e-09 37.7 Leucine rich repeat N-terminal domain
XP_057810901.1 Pfam PF13855 LRR_8 Repeat 128 188 1e-55 186.1 Leucine rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 130 151 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF12799 LRR_4 Repeat 153 188 2e-47 158.8 Leucine Rich repeats (2 copies)
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 154 175 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF13855 LRR_8 Repeat 177 236 1e-55 186.1 Leucine rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 178 199 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF13855 LRR_8 Repeat 200 260 1e-55 186.1 Leucine rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 201 223 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF12799 LRR_4 Repeat 201 236 2e-47 158.8 Leucine Rich repeats (2 copies)
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 225 247 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF23598 LRR_14 Repeat 275 482 7.1e-39 134.3 Leucine-rich repeat region
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 276 297 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF13855 LRR_8 Repeat 278 334 1e-55 186.1 Leucine rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 299 321 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 323 345 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF13516 LRR_6 Repeat 369 382 2.7e-08 33.9 Leucine Rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 371 391 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 422 443 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF13855 LRR_8 Repeat 422 480 1e-55 186.1 Leucine rich repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 498 513 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 524 545 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 548 568 7.8e-61 189.5 Leucine Rich Repeat
XP_057810901.1 Pfam PF00560 LRR_1 Repeat 595 611 7.8e-61 189.5 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_057954918.1
GATTTTGGCTTTTATTGCAAATAAAAATTAAAAAATCTGTTCATGCCAGATTTCTTTATGGGATTCTGTTAAGAGCATAGTATTTTCATGGGATTCTGTTATATATCACAAAATTGTAATGAGACATCATAATTCAGACATATTCATGCTTTCCCACCATCACAATCTGTAAAGGGGCAAAAACCACAACCAGAAAAGAAAAATCTTACCTTTTCAATATTTTTTGACCAATTCAAGAATTCCTTCCTTCTCTGTTCATT...

CDS

1 records

Download CDS FASTA
LOC131025249
ATGAAGGAAATGTGGTTCAAGATTCTGTGTTTTCTAGCAGTTGCAACCCTCACTGCTGCTGGAGAGACCTGCCACTCCAATGACCTGAAAGGGCTAGCATCTTTTCGGGCAGGGATTCGGTCGGACCCGTCTGCCCGGATGCAGAAGTGGACCGGCCGCGGCTGCTGCAGCTGGGAAGGTGTAACGTGCGACAACGAGACCGGAAGGGTGACAGAGCTCAATCTCCCAGGCCTATTCACTTCAGATGATGTTCCTGTCCA...

Protein

1 records

Download Protein FASTA
XP_057810901.1
MKEMWFKILCFLAVATLTAAGETCHSNDLKGLASFRAGIRSDPSARMQKWTGRGCCSWEGVTCDNETGRVTELNLPGLFTSDDVPVQTSMIGSLSPSITLLTSLQVIDLSGLIGLMGEIPPMIGSRLPGLRKLALSGNKFEGLLPESIGELSELQELYLSENSLTGSIPGSIGNLKGLRILDLQSNRFSGAIPESITNLSNLERLDLQNNFLTGSIPGGIGDLQSLKELDLSNNSLSGRIPSSVTRLRAVSVVYLDNNQL...

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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