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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_002075
Reference: OH-1004 Chr: Chr01 Coordinates: 41382481-41387566 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2787 bp · LXL04_002075|LXL04_002075|OH1004|cDNA

ATGTTGGAACTTCAATTGTTGGTGTTTGTTTTTCGCTCTGGGACAGCCTCTCAGACTCGATATCAAGAGGAAGCTTGCTCAAAGATCAGAAAGAGTAAAATCGGTGGACCTGCATCCAACGGAACCATGGTAATGATGCACATGTCATATGACTCATATCTCATAGGGATCCTCACAAGTTTGTATTCAGGAACAGTCTGCATATGGGATTACCAGTCTCAGACTATGGCAAAATCATTTGAGGTTACTGAGTTACCAGT...

CDS

Download CDS FASTA

2787 bp · LXL04_002075|LXL04_002075|OH1004|CDS

ATGTTGGAACTTCAATTGTTGGTGTTTGTTTTTCGCTCTGGGACAGCCTCTCAGACTCGATATCAAGAGGAAGCTTGCTCAAAGATCAGAAAGAGTAAAATCGGTGGACCTGCATCCAACGGAACCATGGTAATGATGCACATGTCATATGACTCATATCTCATAGGGATCCTCACAAGTTTGTATTCAGGAACAGTCTGCATATGGGATTACCAGTCTCAGACTATGGCAAAATCATTTGAGGTTACTGAGTTACCAGT...

Protein

Download Protein FASTA

928 aa · LXL04_002075|LXL04_002075|OH1004|PROTEIN

MLELQLLVFVFRSGTASQTRYQEEACSKIRKSKIGGPASNGTMVMMHMSYDSYLIGILTSLYSGTVCIWDYQSQTMAKSFEVTELPVRSAKFIARKQWVVAGADDMYIRVYNYNTMDKVKVYEAHTDYIRCVAVHPTLPYVLSSSDDMLIKLWDWEKSWLCTQIFEGHSHYVMQVTINPKDTNTFASASLDRTIKIWNLGSPDPNFTLDAHLKGVNCVDYFTGGDKPYLITGSDDHTAKVWDYQTKSCVQTLEGHTHNIS...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

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ID Mapping

Input IDLXL04_002075
TK1151 IDTkA01G484650
OH-1004 IDLXL04_002075
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.900
Protein coverage (%)TK1151 96.121 / OH-1004 85.453
Coverage and evidence

Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.

Source versionOH-1004 / GCA_047496595.1_OSU_TarKok_2.0
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDLXL04_002075
LocationChr01:41382481-41387566 (-)
DescriptionSimilar to At1g52360: Coatomer subunit beta'-2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g52360 The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. No verified direct reference in this release
At1g79990 The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. No verified direct reference in this release
At3g15980 The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os06g0143900 The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. No verified direct reference in this release
Os02g0209100 The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_002075 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006886 intracellular protein transport Biological Process
GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process
GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process
GO:0006891 intra-Golgi vesicle-mediated transport Biological Process
GO:0000139 Golgi membrane Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0005829 cytosol Cellular Component
GO:0030126 COPI vesicle coat Cellular Component
GO:0005198 structural molecule activity Molecular Function
KEGG gene cross-reference
ath:AT1G52360
ath:AT1G79990
ath:AT3G15980
dosa:Os02g0209100
dosa:Os06g0143900
These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.
Open Annotation Module

Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene
Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Cytoplasm0.489
Rank 1 · LXL04_002075 · OH-1004
Golgi apparatus0.262
Rank 2 · LXL04_002075 · OH-1004
Nucleus0.250
Rank 3 · LXL04_002075 · OH-1004
Lysosome / Vacuole0.198
Rank 4 · LXL04_002075 · OH-1004
Cell membrane0.099
Rank 5 · LXL04_002075 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF25171.2Beta-prop_WDR36-Utp21_1st39-197 aa
PF24805.2EIF3I43-141 aa
PF25391.2WD40_Gbeta44-238 aa
PF25168.2Beta-prop_WDR36-Utp21_2nd50-166 aa
PF24814.2WD40_Prp1957-211 aa
PF24796.2WDR5557-225 aa
PF25174.2Beta-prop_THOC358-218 aa
PF23381.2Beta-prop_IFT122_1st58-157 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_002075PF25171.2Beta-prop_WDR36-Utp21_1st391972.7e-1454.0
LXL04_002075PF24805.2EIF3I431412.7e-1453.7
LXL04_002075PF25391.2WD40_Gbeta442385.2e-2485.6
LXL04_002075PF25168.2Beta-prop_WDR36-Utp21_2nd501662.4e-2073.8
LXL04_002075PF24814.2WD40_Prp19572111.1e-36127.1
LXL04_002075PF24796.2WDR55572255e-2485.6
LXL04_002075PF25174.2Beta-prop_THOC3582183.3e-39135.3
LXL04_002075PF23381.2Beta-prop_IFT122_1st581573.1e-38132.4
LXL04_002075PF25172.2Beta-prop_WDR3_2nd581563.2e-2589.7
LXL04_002075PF23414.2Beta-prop_EML_2581991.5e-2487.5
LXL04_002075PF25175.2Beta-prop_WDR5601982.5e-52178.7
LXL04_002075PF25173.2Beta-prop_WDR3_1st631844.6e-41141.3
LXL04_002075PF24817.2WD40_WDHD1_1st631573.3e-34119.1
LXL04_002075PF25168.2Beta-prop_WDR36-Utp21_2nd632012.4e-2073.8
LXL04_002075PF24807.2WD40_CDC20-Fz642531.7e-31110.4
LXL04_002075PF24780.2WD40_MABP1-WDR62_1st682006.4e-1039.5

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9C827Arabidopsis thalianaCoatomer subunit beta'-279.819%Swiss-Protstrong database homology
Q9CAA0Arabidopsis thalianaCoatomer subunit beta'-179.213%Swiss-Protstrong database homology
Q8L828Arabidopsis thalianaCoatomer subunit beta'-381.796%Swiss-Protstrong database homology
Q5VQ78Oryza sativa subsp. japonicaCoatomer subunit beta'-180.941%Swiss-Protstrong database homology
Q6H8D5Oryza sativa subsp. japonicaCoatomer subunit beta'-278.851%Swiss-Protstrong database homology

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