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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

SmilChr01G000262

Chromosome: Chr01 Coordinates: 5059298-5083570 Strand: - Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr01G000262
NameSmilChr01G000262
Descriptionuncharacterized SmilChr01G000262
Chromosome / SeqIDChr01 / NC_080387.1
Coordinates and Strand5059298 - 5083570 / -

ID Mapping

NCBI Gene IDLOC131015730
GeneID131015730
locus_tag-
NCBI NameLOC131015730
Original queryLOC131015730

Open ID mapping

Functional Annotation

SourceGFF basic annotation; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionhit=Os05g0155700; species=rice; confidence=high
Producthit=Os05g0155700; species=rice; confidence=high
ArabidopsisAT5G47900 (AT5G47900)
heparan-alpha-glucosaminide N-acetyltransferase-like protein (DUF1624) [Source:NCBI gene (formerly Entrezgene);Acc:834841]
identity=56.4; qcov=0.825; evalue=5.58e-150; confidence=high
RiceOs05g0155700
-
identity=58.1; qcov=0.923; evalue=0; confidence=high
GO-
KEGG-
PfamPF07786 (HGSNAT_cat)
InterPro-
eggNOG-
NRGeneID:131015730

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Endoplasmic reticulum membrane 内质网膜 0.80000 XP_057800143.1
2 Vacuole membrane 液泡膜 0.80000 XP_057800160.1
3 Golgi apparatus 高尔基体 0.60000 XP_057800167.1
4 Endoplasmic reticulum 内质网 0.40000 XP_057800151.1
5 Vacuole 液泡 0.40000 XP_057800151.1

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
Chr1:5070999 TG T 1bp_deletion frameshift_variant 1 B32
Chr1:5070999 TG T 1bp_deletion CDS_variant 1 B32
Chr1:5071013 G A EMS_canonical_SNV CDS_variant 1 D10
Chr1:5071022 G A EMS_canonical_SNV CDS_variant 5 B131,B138,B55,B76,D10
Chr1:5071026 C T EMS_canonical_SNV CDS_variant 1 D10
Chr1:5071048 G A EMS_canonical_SNV CDS_variant 2 A16,B29
Chr1:5072239 G A EMS_canonical_SNV CDS_variant 1 B140
Chr1:5072241 G A EMS_canonical_SNV CDS_variant 1 B140
Chr1:5072260 C T EMS_canonical_SNV CDS_variant 2 B131,B76
Chr1:5072283 C T EMS_canonical_SNV CDS_variant 1 B140
Chr1:5079791 C T EMS_canonical_SNV CDS_variant 2 B129,B70
Chr1:5079819 G A EMS_canonical_SNV CDS_variant 3 B129,B70,D10

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_057800136.1
513 aa
N
1
256
513
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
XP_057800143.1
509 aa
N
1
254
509
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
XP_057800151.1
488 aa
N
1
244
488
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
XP_057800155.1
486 aa
N
1
243
486
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
XP_057800160.1
485 aa
N
1
242
485
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
XP_057800167.1
481 aa
N
1
240
481
HGSNAT_cat
C
PF07786 HGSNAT_cat 51-196 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057800136.1 Pfam PF07786 HGSNAT_cat Domain 51 196 9.7e-07 29.3 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic
XP_057800143.1 Pfam PF07786 HGSNAT_cat Domain 51 196 9.5e-07 29.3 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic
XP_057800151.1 Pfam PF07786 HGSNAT_cat Domain 51 196 8.8e-07 29.4 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic
XP_057800155.1 Pfam PF07786 HGSNAT_cat Domain 51 196 8.7e-07 29.4 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic
XP_057800160.1 Pfam PF07786 HGSNAT_cat Domain 51 196 8.7e-07 29.4 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic
XP_057800167.1 Pfam PF07786 HGSNAT_cat Domain 51 196 8.5e-07 29.4 Heparan-alpha-glucosaminide N-acetyltransferase, catalytic

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

7 records

Download cDNA FASTA
XR_009098679.1
CAAGTGAAGGGCACTATACTTGAGTTACCCTTGTAGATGCTCTTAATACAGCTGCGGAATGGCTTCCATCACTGTGGTTTCTGCTGACGCCGCCGAAGACCGTACGCCGCTTCTCCAAGATTCTTACACGGAATATTCCGGCGGAGAGGGGTATACTATACCACCGGCGCCGCCGCCGCCGCCTATTATTTCAATCGATCCTAAGCAACGCCTTGTATCGCTTGATGTTTTCCGAGGACTCACTGTTGCTTTGATGATAT...
XM_057944168.1
CAAGTGAAGGGCACTATACTTGAGTTACCCTTGTAGATGCTCTTAATACAGCTGCGGAATGGCTTCCATCACTGTGGTTTCTGCTGACGCCGCCGAAGACCGTACGCCGCTTCTCCAAGATTCTTACACGGAATATTCCGGCGGAGAGGGGTATACTATACCACCGGCGCCGCCGCCGCCGCCTATTATTTCAATCGATCCTAAGCAACGCCTTGTATCGCTTGATGTTTTCCGAGGACTCACTGTTGCTTTGATGATAT...

CDS

6 records

Download CDS FASTA
LOC131015730
ATGGCTTCCATCACTGTGGTTTCTGCTGACGCCGCCGAAGACCGTACGCCGCTTCTCCAAGATTCTTACACGGAATATTCCGGCGGAGAGGGGTATACTATACCACCGGCGCCGCCGCCGCCGCCTATTATTTCAATCGATCCTAAGCAACGCCTTGTATCGCTTGATGTTTTCCGAGGACTCACTGTTGCTTTGATGATATTGGTTGATGATGCTGGAGGAGCATTTCCGTCAATAAACCATGCGCCGTGGTTCGGATT...
LOC131015730
ATGGCTTCCATCACTGTGGTTTCTGCTGACGCCGCCGAAGACCGTACGCCGCTTCTCCAAGATTCTTACACGGAATATTCCGGCGGAGAGGGGTATACTATACCACCGGCGCCGCCGCCGCCGCCTATTATTTCAATCGATCCTAAGCAACGCCTTGTATCGCTTGATGTTTTCCGAGGACTCACTGTTGCTTTGATGATATTGGTTGATGATGCTGGAGGAGCATTTCCGTCAATAAACCATGCGCCGTGGTTCGGATT...

Protein

6 records

Download Protein FASTA
XP_057800136.1
MASITVVSADAAEDRTPLLQDSYTEYSGGEGYTIPPAPPPPPIISIDPKQRLVSLDVFRGLTVALMILVDDAGGAFPSINHAPWFGLTLADFVMPFFLFGVGVSVSLVFKKVENRLEATKRVMSRSIKLFLLGMILQGGYFHGRGDLTYGIDVEKIRVMGVLQRIAIGYLLTSVLEIWLVNNTAVNSTITFMKRYSFQIVAGILVGVLYMVLLYGLYVPDWNFNASSLSMTQQTLLGANSQTVYCGIRGSLGPPCNAVGF...
XP_057800143.1
MASITVVSADAAEDRTPLLQDSYTEYSGGEGYTIPPAPPPPPIISIDPKQRLVSLDVFRGLTVALMILVDDAGGAFPSINHAPWFGLTLADFVMPFFLFGVGVSVSLVFKKVENRLEATKRVMSRSIKLFLLGMILQGGYFHGRGDLTYGIDVEKIRVMGVLQRIAIGYLLTSVLEIWLVNNTAVNSTITFMKRYSFQIVAGILVGVLYMVLLYGLYVPDWNFNASSLSMTQQTLLGANSQTVYCGIRGSLGPPCNAVGF...

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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