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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

SmilChr05G001001

Chromosome: Chr05 Coordinates: 8169071-8171663 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr05G001001
NameSmilChr05G001001
Descriptionexo-alpha-bergamotene synthase-like
Chromosome / SeqIDChr05 / NC_080391.1
Coordinates and Strand8169071 - 8171663 / +

ID Mapping

NCBI Gene IDLOC130985715
GeneID130985715
locus_tag-
NCBI NameLOC130985715
Original querySmilChr05G001001

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionexo-alpha-bergamotene synthase-like
Productexo-alpha-bergamotene synthase-like
ArabidopsisAT3G25820 (TPS-CIN)
terpene synthase-like sequence-1,8-cineole [Source:NCBI gene (formerly Entrezgene);Acc:822175]
identity=45.8; qcov=1.04; evalue=1.06e-162; confidence=high
RiceOs08g0168000 (OsTPS31)
-
identity=31.9; qcov=1.02; evalue=1.95e-81; confidence=low
GOGO:0000287 (magnesium ion binding); GO:0010333 (terpene synthase activity); GO:0016102 (diterpenoid biosynthetic process)
KEGG-
PfamPF01397 (Terpene_synth); PF03936 (Terpene_synth_C); PF19086 (Terpene_syn_C_2)
InterPro-
eggNOG-
NRGeneID:130985715

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cytosol 细胞质基质 0.80000 XP_057764789.1
2 Cytoplasm 细胞质 0.60000 XP_057764789.1
3 Chloroplast 叶绿体 0.60000 XP_057764789.1
4 Nucleus 细胞核 0.00000 XP_057764789.1
5 Chromosome 染色体 0.00000 XP_057764789.1

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
Chr5:8169630 G A EMS_canonical_SNV CDS_variant 3 B102,B125,B77
Chr5:8169685 G A EMS_canonical_SNV CDS_variant 4 B99,C73,C87,D6
Chr5:8169872 G A EMS_canonical_SNV CDS_variant 1 B104
Chr5:8169982 G A EMS_canonical_SNV CDS_variant 4 B49,B99,C73,C87
Chr5:8170165 C T EMS_canonical_SNV CDS_variant 2 B103,B61
Chr5:8170235 C T EMS_canonical_SNV CDS_variant 3 C35,C8,D6
Chr5:8170511 AC A 1bp_deletion frameshift_variant 1 B125
Chr5:8170511 AC A 1bp_deletion CDS_variant 1 B125
Chr5:8170674 C CA 1bp_insertion frameshift_variant 1 C10
Chr5:8170674 C CA 1bp_insertion CDS_variant 1 C10
Chr5:8170675 C T EMS_canonical_SNV CDS_variant 1 D11
Chr5:8171290 G A EMS_canonical_SNV CDS_variant 3 C22,C8,D9

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_057764789.1
537 aa
N
1
268
537
Terpene_synth
Terpene_synth_C
Terpene_syn_C_2
C
PF01397 Terpene_synth 14-185 aa PF03936 Terpene_synth_C 242-479 aa PF19086 Terpene_syn_C_2 282-480 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057764789.1 Pfam PF01397 Terpene_synth Repeat 14 185 3.9e-52 177.4 Terpene synthase, N-terminal domain
XP_057764789.1 Pfam PF03936 Terpene_synth_C Domain 242 479 1.6e-90 303.4 Terpene synthase family, metal binding domain
XP_057764789.1 Pfam PF19086 Terpene_syn_C_2 Domain 282 480 7.7e-57 193.0 Terpene synthase family 2, C-terminal metal binding

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_057908806.1
AACAAACTTCACGTGTCTATGTTTTTGAACATCGTAACTTGATTGGCCTCTCACATTTCGAACAACTATATAGCAATTAGCAATCTTTCGGTATTTGTGAAATACTGATCTCCACATCTAATCACATCACAGCTTGTTAATTAAGATCGAAATTGTTCATGGAGGAGGTGAGGAGGTCAGCAAACCTTGGAGCCAGTATCTGGGATGACGATTACATTCAGTCTCTCGCAAGTTTATACACGGGGGAAAAGTACGTAGCT...

CDS

1 records

Download CDS FASTA
LOC130985715
ATGGAGGAGGTGAGGAGGTCAGCAAACCTTGGAGCCAGTATCTGGGATGACGATTACATTCAGTCTCTCGCAAGTTTATACACGGGGGAAAAGTACGTAGCTGAAGCTGAGAAACTGAAAAATCTGGTGAAAATAATGATAGACGAAACCGAAGACGAGCTGGACCAACTTGAGCTTATCGACAGTCTGCAGAGGCTGGGTTTATGTAACCACTTCGAGGATCGAATAGCTAAGAAGTTAGACAGCATTTATGAGGCGGA...

Protein

1 records

Download Protein FASTA
XP_057764789.1
MEEVRRSANLGASIWDDDYIQSLASLYTGEKYVAEAEKLKNLVKIMIDETEDELDQLELIDSLQRLGLCNHFEDRIAKKLDSIYEAEKCMEEDLHVTALKFRLLRQHGYHVPQEVFCSFMDDVGNFKASLCEDVRGVVSLYEASYLSMEGESILDLAKDFSLNHLTRRIDEITEPRLAEQVRHALEVPLHWRVQRLEARWYIKAYESRSSANPILVELAKLDFNMVQATYQQELKRMSRWYKETGLTEKLGFARHRLAEC...

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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JBrowse

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