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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

TkA04G038880
Reference: TK1151 Chr: Chr04 Coordinates: 10428519-10429379 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

387 bp · TkA04G038880|TK1151|cDNA

ATGCAGATCTTCGTCAAAACCCTAACCGGGAAGACCATCACCCTCGAGGTTGAGAGCAGTGACACCATCGACAATGTCAAGGCCAAGATTCAAGACAAGGAGGGTATTCCTCCGGATCAGCAGCGGTTGATCTTCGCCGGCAAGCAGCTTGAAGACGGCCGAACCCTCGCTGATTATAACATCCAGAAAGAGTCAACTCTTCATTTGGTATTGAGGCTAAGAGGAGGAATCATTGAGCCTTCTTTGATGGCATTGGCTAG...

CDS

Download CDS FASTA

387 bp · TkA04G038880|TK1151|CDS

ATGCAGATCTTCGTCAAAACCCTAACCGGGAAGACCATCACCCTCGAGGTTGAGAGCAGTGACACCATCGACAATGTCAAGGCCAAGATTCAAGACAAGGAGGGTATTCCTCCGGATCAGCAGCGGTTGATCTTCGCCGGCAAGCAGCTTGAAGACGGCCGAACCCTCGCTGATTATAACATCCAGAAAGAGTCAACTCTTCATTTGGTATTGAGGCTAAGAGGAGGAATCATTGAGCCTTCTTTGATGGCATTGGCTAG...

Protein

Download Protein FASTA

128 aa · TkA04G038880|TK1151|PROTEIN

MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIEPSLMALARKYNQDKTICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkA04G038880
TK1151 IDTkA04G038880
OH-1004 IDLXL04_018370
Relationship / confidenceMulti Candidate From Tk1151 / Complex relationship
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkA04G038880
LocationChr04:10428519-10429379 (+)
DescriptionSimilar to UBICEP52-7: Ubiquitin-60S ribosomal protein L40
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g36170 Exists either covalently attached to another protein, or free (unanchored). No verified direct reference in this release
At3g52590 Exists either covalently attached to another protein, or free (unanchored). No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os03g0234200 Exists either covalently attached to another protein, or free (unanchored). No verified direct reference in this release
Os09g0568400 Exists either covalently attached to another protein, or free (unanchored). No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018370 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)
GO:0006412 translation Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0019941 modification-dependent protein catabolic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0005730 nucleolus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005783 endoplasmic reticulum Cellular Component
GO:0005829 cytosol Cellular Component
GO:0005840 ribosome Cellular Component
GO:0022625 cytosolic large ribosomal subunit Cellular Component
GO:0022626 cytosolic ribosome Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
KEGG gene cross-reference
ath:AT2G36170
ath:AT3G52590
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.

Cytoplasm0.575
Rank 1 · TkA04G038880 · TK1151
Nucleus0.397
Rank 2 · TkA04G038880 · TK1151
Cell membrane0.121
Rank 3 · TkA04G038880 · TK1151
Mitochondrion0.092
Rank 4 · TkA04G038880 · TK1151
Endoplasmic reticulum0.081
Rank 5 · TkA04G038880 · TK1151

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.

PF11976Rad60-SLD1-71 aa
PF18036Ubiquitin_41-33 aa
PF00240ubiquitin3-74 aa
PF23326UBL_UBAC18-72 aa
PF20170Plexin_RBD9-32 aa
PF13881Rad60-SLD_210-72 aa
PF10790DUF260410-72 aa
PF21403OTU1_UBXL10-39 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G038880PF11976Rad60-SLD1711.1e-1764.3
TkA04G038880PF18036Ubiquitin_41330.02515.2
TkA04G038880PF00240ubiquitin3749.8e-33112.5
TkA04G038880PF23326UBL_UBAC18720.03714.7
TkA04G038880PF20170Plexin_RBD9320.0414.7
TkA04G038880PF13881Rad60-SLD_210720.008916.9
TkA04G038880PF10790DUF260410720.0315.4
TkA04G038880PF21403OTU1_UBXL10390.1813.1
TkA04G038880PF14560Ubiquitin_211693.9e-0524.7
TkA04G038880PF10302Dsc3_N13640.04215.1
TkA04G038880PF18396TBK1_ULD17510.03614.7
TkA04G038880PF18037Ubiquitin_521670.04614.7
TkA04G038880PF18036Ubiquitin_443730.02515.2
TkA04G038880PF20170Plexin_RBD54680.0414.7
TkA04G038880PF01020Ribosomal_L40e781271.5e-30105.6
TkA04G038880PF14560Ubiquitin_279963.9e-0524.7

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
B9DHA6Arabidopsis thalianasp|B9DHA6|RL40A_ARATH Ubiquitin-ribosomal protein eL40z fusion protein98.400%Swiss-ProtHigh
Q42202Arabidopsis thalianasp|Q42202|RL40B_ARATH Ubiquitin-ribosomal protein eL40y fusion protein98.400%Swiss-ProtHigh
P0CH34Oryza sativa subsp. japonicasp|P0CH34|RL40A_ORYSJ Ubiquitin-ribosomal protein eL40z fusion protein98.400%Swiss-ProtHigh
P0CH35Oryza sativa subsp. japonicasp|P0CH35|RL40B_ORYSJ Ubiquitin-ribosomal protein eL40y fusion protein98.400%Swiss-ProtHigh

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