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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

SmilChr03G002192

Chromosome: Chr03 Coordinates: 34433795-34434483 Strand: - Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr03G002192
NameSmilChr03G002192
Descriptionwound-induced protein 1
Chromosome / SeqIDChr03 / NC_080389.1
Coordinates and Strand34433795 - 34434483 / -

ID Mapping

NCBI Gene IDLOC131016421
GeneID131016421
locus_tag-
NCBI NameLOC131016421
Original queryLOC131016421

Open ID mapping

Functional Annotation

SourceGFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionwound-induced protein 1
Productwound-induced protein 1
ArabidopsisAT5G01740 (AT5G01740)
Nuclear transport factor 2 (NTF2) family protein [Source:NCBI gene (formerly Entrezgene);Acc:831686]
identity=47.6; qcov=1.04; evalue=2.98e-44; confidence=medium
RiceOs05g0342100
-
identity=47.8; qcov=0.879; evalue=8.81e-31; confidence=medium
GO-
KEGG-
PfamPF07107 (WI12)
InterPro-
eggNOG-
NRGeneID:131016421

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cytosol 细胞质基质 1.00000 XP_057801101.1
2 Cytoplasm 细胞质 0.80000 XP_057801101.1
3 Nucleus 细胞核 0.00000 XP_057801101.1
4 Chromosome 染色体 0.00000 XP_057801101.1
5 Centromere 着丝粒 0.00000 XP_057801101.1

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
Chr3:34433996 GA G 1bp_deletion frameshift_variant 45 A11,A13,A19,A24,A3,A4,B114,B117,B131,B137,B140,B19,B24,B33,B37,B40,B41,B48,B49,B50,B52,B56,B67,B7,B71,B73,B81,B83,B87,B89,C24,C30,C33,C47,C53,C60,C66,C69,C75,C80,C83,C84,C9,D11,D2
Chr3:34433998 GGA G 2bp_deletion frameshift_variant 43 A11,A13,A19,A24,A3,A4,B114,B117,B131,B137,B140,B24,B33,B37,B40,B41,B48,B49,B50,B67,B7,B71,B73,B81,B86,B87,B89,C24,C30,C31,C33,C47,C53,C60,C66,C69,C75,C80,C83,C84,C9,D11,D2
Chr3:34434001 G A EMS_canonical_SNV CDS_variant 1 C39
Chr3:34434005 C T EMS_canonical_SNV CDS_variant 1 C32
Chr3:34434006 G A EMS_canonical_SNV CDS_variant 1 B71
Chr3:34434079 G A EMS_canonical_SNV CDS_variant 4 B72,B81,C31,C82
Chr3:34434086 C T EMS_canonical_SNV CDS_variant 1 C60
Chr3:34434122 CCT C 2bp_deletion frameshift_variant 110 A10,A11,A13,A14,A19,A21,A24,A3,A4,A7,A9,B102,B110,B111,B112,B113,B114,B117,B12,B120,B122,B125,B127,B130,B131,B138,B140,B15,B19,B2,B21,B24,B3,B32,B34,B36,B37,B4,B40,B41,B42,B45,B49,B53,B54,B55,B56,B58,B6,B60,B61,B66,B67,B69,B7,B71,B76,B79,B81,B82,B83,B84,B86,B87,B89,B92,B95,B97,B99,C16,C20,C21,C24,C25,C26,C28,C31,C32,C33,C34,C36,C39,C40,C41,C43,C47,C5,C53,C55,C59,C60,C66,C68,C69,C73,C75,C8,C80,C82,C83,C84,C85,C87,D1,D10,D11,D2,D3,D6,D7
Chr3:34434127 G GAT 2bp_insertion frameshift_variant 30 A13,A19,A3,A9,B102,B112,B120,B127,B131,B24,B3,B33,B34,B56,B58,B6,B60,B71,B76,B83,B97,C26,C32,C40,C41,C60,C68,C73,C80,D10
Chr3:34434132 C T EMS_canonical_SNV CDS_variant 1 B60
Chr3:34434153 G GC 1bp_insertion frameshift_variant 12 A9,B120,B131,B24,B34,B58,B6,B60,B71,C57,C68,C70
Chr3:34434155 GAT G 2bp_deletion frameshift_variant 14 A9,B120,B131,B24,B34,B58,B6,B60,B71,C52,C57,C68,C70,C77

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_057801101.1
157 aa
N
1
78
157
WI12
C
PF07107 WI12 59-157 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057801101.1 Pfam PF07107 WI12 Domain 59 157 9.3e-31 106.8 Wound-induced protein WI12

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_057945118.1
ACCCATAAACTCACCATGCAAGAATCTATCAAATAGTAACTCATACAAACACAACTTGGACCACTCCTCATTAACCTCAATGGAATCCAAAACCATCAACTCTGCAGCCTCATCACCGCAGGACTCGGCCATCGCCGACGTCCGCCGCCTTTACAAAGCCGTGGCGAGCGGCGGCGCAGGAGAAATCCCCGGTGTGATGATCGCCGGCGACCTAGAATGGTGGTTCCACGGGCCGCAGAAGTGCCATTACATGATGAAGA...

CDS

1 records

Download CDS FASTA
LOC131016421
ATGGAATCCAAAACCATCAACTCTGCAGCCTCATCACCGCAGGACTCGGCCATCGCCGACGTCCGCCGCCTTTACAAAGCCGTGGCGAGCGGCGGCGCAGGAGAAATCCCCGGTGTGATGATCGCCGGCGACCTAGAATGGTGGTTCCACGGGCCGCAGAAGTGCCATTACATGATGAAGAAGCTGACCGGAGAATCCTCCGGGCGGGATTTCGAGTTCGAGCCTCGAAACATCGACATCGTCGACGATCTCGTAATCGT...

Protein

1 records

Download Protein FASTA
XP_057801101.1
MESKTINSAASSPQDSAIADVRRLYKAVASGGAGEIPGVMIAGDLEWWFHGPQKCHYMMKKLTGESSGRDFEFEPRNIDIVDDLVIVEGWEGAEVYWVHVWTLKDGVITQFREYFNTWLTVRDVRPLSCSGGGAAPLWQSHPQDLPERSLPGLMLAI

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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