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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

SmilChr05G000300

Chromosome: Chr05 Coordinates: 2283796-2284997 Strand: + Biotype: protein_coding

Basic Information

Standard Gene IDSmilChr05G000300
NameSmilChr05G000300
Descriptionxyloglucan endotransglucosylase/hydrolase protein 24-like
Chromosome / SeqIDChr05 / NC_080391.1
Coordinates and Strand2283796 - 2284997 / +

ID Mapping

NCBI Gene IDLOC130985022
GeneID130985022
locus_tag-
NCBI NameLOC130985022
Original querySmilChr05G000300

Open ID mapping

Functional Annotation

SourceGFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Descriptionxyloglucan endotransglucosylase/hydrolase protein 24-like
Productxyloglucan endotransglucosylase/hydrolase protein 24-like
ArabidopsisAT4G30270 (XTH24)
xyloglucan endotransglucosylase/hydrolase 24 [Source:NCBI gene (formerly Entrezgene);Acc:829150]
identity=60.9; qcov=0.934; evalue=1.67e-124; confidence=high
RiceOs06g0697000 (OsXTH10)
-
identity=58.1; qcov=0.962; evalue=2.81e-122; confidence=high
GOGO:0004553 (hydrolase activity, hydrolyzing O-glycosyl compounds); GO:0005618 (cell wall); GO:0010411 (xyloglucan metabolic process); GO:0016762 (xyloglucan:xyloglucosyl transferase activity); GO:0042546 (cell wall biogenesis); GO:0048046 (apoplast)
KEGG-
PfamPF00722 (Glyco_hydro_16); PF06955 (XET_C)
InterPro-
eggNOG-
NRGeneID:130985022

Open annotation module

Subcellular Localization Top 5

RankLocationChineseScoreProtein ID
1 Cell wall 细胞壁 0.60000 XP_057763751.1
2 Secreted 分泌到胞外 0.40000 XP_057763751.1
3 Nucleus 细胞核 0.00000 XP_057763751.1
4 Chromosome 染色体 0.00000 XP_057763751.1
5 Centromere 着丝粒 0.00000 XP_057763751.1

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
Chr5:2283874 G A EMS_canonical_SNV CDS_variant 5 B22,B82,B91,B95,D2
Chr5:2283952 C T EMS_canonical_SNV CDS_variant 2 B85,C82
Chr5:2283954 C T EMS_canonical_SNV CDS_variant 5 B42,B43,C45,D1,D11
Chr5:2283955 C T EMS_canonical_SNV CDS_variant 5 A3,B130,C32,C68,C80
Chr5:2283957 G A EMS_canonical_SNV stop_gained 1 D11
Chr5:2283957 G A EMS_canonical_SNV CDS_variant 1 D11
Chr5:2283966 G A EMS_canonical_SNV CDS_variant 1 C83
Chr5:2283980 G A EMS_canonical_SNV CDS_variant 1 C83
Chr5:2283987 G A EMS_canonical_SNV CDS_variant 5 A9,B127,B98,C8,D6
Chr5:2284013 G A EMS_canonical_SNV CDS_variant 5 B31,B65,B72,C20,C71
Chr5:2284029 C T EMS_canonical_SNV CDS_variant 1 C86
Chr5:2284036 C T EMS_canonical_SNV CDS_variant 2 B25,B28

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_057763751.1
290 aa
N
1
145
290
Glyco_hydro_16
XET_C
C
PF00722 Glyco_hydro_16 30-210 aa PF06955 XET_C 242-285 aa
Protein ID Source Domain ID Domain name Type Start aa End aa E-value Score Description
XP_057763751.1 Pfam PF00722 Glyco_hydro_16 Domain 30 210 9.2e-67 224.6 Glycosyl hydrolases family 16
XP_057763751.1 Pfam PF06955 XET_C Family 242 285 6.5e-20 71.4 Xyloglucan endo-transglycosylase (XET) C-terminus

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_057907768.1
TGATTGCAGATGCATCACAACCTTCTCAATTTGAAAAAAAAGCAAGTTCAAAATGGGCAATGTGTCCAAAACTCATCGGAATTTGGCTCTACTTTGCATTTCAATGGCGTTGGCGGCAACAATTGCAGCTGGAAACTTCAACAGAGACGTCGACATCACCTGGGGCGACGGCCGCGCCAAAATCGTCGACGGCGGCCGTGGCCTGAGCCTCTCACTCGACCAGTATTCCGGCTCCGGTTTCCAGTCGAAGAATTACTACT...

CDS

1 records

Download CDS FASTA
LOC130985022
ATGGGCAATGTGTCCAAAACTCATCGGAATTTGGCTCTACTTTGCATTTCAATGGCGTTGGCGGCAACAATTGCAGCTGGAAACTTCAACAGAGACGTCGACATCACCTGGGGCGACGGCCGCGCCAAAATCGTCGACGGCGGCCGTGGCCTGAGCCTCTCACTCGACCAGTATTCCGGCTCCGGTTTCCAGTCGAAGAATTACTACTTGTTCGGGAGATTCGACGTGCTCATGAAGCTCGCTCCGGGAAACTCAGCCGG...

Protein

1 records

Download Protein FASTA
XP_057763751.1
MGNVSKTHRNLALLCISMALAATIAAGNFNRDVDITWGDGRAKIVDGGRGLSLSLDQYSGSGFQSKNYYLFGRFDVLMKLAPGNSAGTVTTFFLASEGPSHDEIDFEFLGNSSGEPYTVHTNVYSQGKGDKEQQFRLWFDPSAAFHKYSIVWNPHRIIFMVDDIPMRVFNNEAASGVPFPTSKPMRIICSLWNADDWATQGGRVKTDWSKAPFTAHYRNIGISGRPCGSAAACGSGVDTFSNEAWQTQGLDASGRNRVRW...

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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