RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

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

TkA05G428790
Reference: TK1151 Chr: Chr05 Coordinates: 106937904-106948335 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

5440 bp · TkA05G428790|TK1151|cDNA

ATGTTGATGCAGTTGCCTAGCGTGGGGATCAATCCTCAGTTTATTACGTTCACCAATGTGACAATGGAGTCAGATAAGTACATTTGCGTTCGAGAAACATCTCCTCAGAATAGTGTGGTGATTATCGATATGAGCATGCCTATGCAGCCACTGAGGAGACCAATTACTGCTGACTCAGCTCTTATGAATCCTGTTTCCAAGATACTGGCTCTAAAAGCTCAACTGCCTGGAACCACTCAGGACCACTTACAAATATTCAA...

CDS

Download CDS FASTA

3480 bp · TkA05G428790|TK1151|CDS

ATGTTGATGCAGTTGCCTAGCGTGGGGATCAATCCTCAGTTTATTACGTTCACCAATGTGACAATGGAGTCAGATAAGTACATTTGCGTTCGAGAAACATCTCCTCAGAATAGTGTGGTGATTATCGATATGAGCATGCCTATGCAGCCACTGAGGAGACCAATTACTGCTGACTCAGCTCTTATGAATCCTGTTTCCAAGATACTGGCTCTAAAAGCTCAACTGCCTGGAACCACTCAGGACCACTTACAAATATTCAA...

Protein

Download Protein FASTA

1159 aa · TkA05G428790|TK1151|PROTEIN

MLMQLPSVGINPQFITFTNVTMESDKYICVRETSPQNSVVIIDMSMPMQPLRRPITADSALMNPVSKILALKAQLPGTTQDHLQIFNIEMKAKMKSHQMPEQVVFWKWITPKMLGMVTQTSVYHWSIEGDSEPTKMFDRTANLSNNQIINYRCDPSEKWLVLIGITPGSPERPQLVKGNMQLFSVDQQRSQALEAHAASFASFKVPGNENPSILISFATKSSNAGQVTSKLHVIELGAQPGKPSFTKKQADLFFPPDFAD...

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 IDTkA05G428790
TK1151 IDTkA05G428790
OH-1004 IDLXL04_021841
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)99.600
Protein coverage (%)TK1151 97.843 / OH-1004 66.588
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 IDTkA05G428790
LocationChr05:106937904-106948335 (-)
DescriptionSimilar to CHC1: Clathrin heavy chain 1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g11130 Clathrin is the major protein of the polyhedral coat of coated pits and vesicles (By similarity). No verified direct reference in this release
At3g08530 Clathrin is the major protein of the polyhedral coat of coated pits and vesicles (By similarity).
Clathrin mediates endocytosis and polar distribution of PIN auxin transporters in Arabidopsis.2011 · DOI: 10.1105/tpc.111.083030

Rice

Reference gene IDPossible functionPapers / DOI
Os12g0104800 Clathrin is the major protein of the polyhedral coat of coated pits and vesicles. No verified direct reference in this release
Os11g0104900 Clathrin is the major protein of the polyhedral coat of coated pits and vesicles. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_021841 · 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:0000278 mitotic cell cycle Biological Process
GO:0006886 intracellular protein transport Biological Process
GO:0006897 endocytosis Biological Process
GO:0006898 receptor-mediated endocytosis Biological Process
GO:0006914 autophagy Biological Process
GO:0007030 Golgi organization Biological Process
GO:0009414 response to water deprivation Biological Process
GO:0010118 stomatal movement Biological Process
GO:0016192 vesicle-mediated transport Biological Process
GO:0031623 receptor internalization Biological Process
GO:0033572 transferrin transport Biological Process
GO:0042147 retrograde transport, endosome to Golgi Biological Process
KEGG gene cross-reference
ath:AT3G08530
ath:AT3G11130
mmu:67300
osa:4349546
osa:4351255
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.

Cytoplasm0.700
Rank 1 · TkA05G428790 · TK1151
Nucleus0.241
Rank 2 · TkA05G428790 · TK1151
Cell membrane0.148
Rank 3 · TkA05G428790 · TK1151
Lysosome / Vacuole0.107
Rank 4 · TkA05G428790 · TK1151
Golgi apparatus0.107
Rank 5 · TkA05G428790 · 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.

PF01394Clathrin_propel9-44 aa
PF01394Clathrin_propel50-89 aa
PF01394Clathrin_propel144-186 aa
PF01394Clathrin_propel197-237 aa
PF01394Clathrin_propel257-290 aa
PF01394Clathrin_propel298-332 aa
PF09268Clathrin-link333-356 aa
PF13838Clathrin_H_link358-423 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G428790PF01394Clathrin_propel9441.2e-36123.7
TkA05G428790PF01394Clathrin_propel50891.2e-36123.7
TkA05G428790PF01394Clathrin_propel1441861.2e-36123.7
TkA05G428790PF01394Clathrin_propel1972371.2e-36123.7
TkA05G428790PF01394Clathrin_propel2572901.2e-36123.7
TkA05G428790PF01394Clathrin_propel2983321.2e-36123.7
TkA05G428790PF09268Clathrin-link3333561.6e-0937.6
TkA05G428790PF13838Clathrin_H_link3584231.1e-2899.8
TkA05G428790PF23130IcmW4505740.1812.6
TkA05G428790PF09268Clathrin-link4744801.6e-0937.6
TkA05G428790PF00637Clathrin4975382.8e-122403.9
TkA05G428790PF00637Clathrin5466812.8e-122403.9
TkA05G428790PF00637Clathrin6908302.8e-122403.9
TkA05G428790PF00637Clathrin8399732.8e-122403.9
TkA05G428790PF00637Clathrin98211202.8e-122403.9

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
Q0WNJ6Arabidopsis thalianasp|Q0WNJ6|CLAH1_ARATH Clathrin heavy chain 193.400%Swiss-ProtHigh
Q0WLB5Arabidopsis thalianasp|Q0WLB5|CLAH2_ARATH Clathrin heavy chain 292.900%Swiss-ProtHigh
Q2QYW2Oryza sativa subsp. japonicasp|Q2QYW2|CLH2_ORYSJ Clathrin heavy chain 291.900%Swiss-ProtHigh
Q2RBN7Oryza sativa subsp. japonicasp|Q2RBN7|CLH1_ORYSJ Clathrin heavy chain 191.800%Swiss-ProtHigh

JBrowse

View in Genome Browser