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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

TkA06G054490
Reference: TK1151 Chr: Chr06 Coordinates: 14735480-14742029 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3318 bp · TkA06G054490|TK1151|cDNA

AAGTTTTCTAATGTCAGTCCTATGCTCTTGGCGACTTCTTCCCACGGGGCCACGAACTCCTCCCTTCACCTTGCCGGAGGACGAGCGAAGATCGGTATAAATCGGCGATCTTCATTTGATCTAGTGTTTTCCTTTTCATCTCCTGTTTTGGATACCAGAGAAGATGGAATTAAGACAGGTATTTACTGTAGATCTTCTTGAGAGATATGCAGCAAAAGGTCATGGAGTTATTACTTGTATGGCATCTGGAAACGATGTCA...

CDS

Download CDS FASTA

2952 bp · TkA06G054490|TK1151|CDS

ATGGAATTAAGACAGGTATTTACTGTAGATCTTCTTGAGAGATATGCAGCAAAAGGTCATGGAGTTATTACTTGTATGGCATCTGGAAACGATGTCATTGTTCTAGGAACCAGTACCGGATGGCTAATCAGGCATGACTTTGGTGTTGGTGATTCCTTTGATATTGATCTGTCCACGGGTAGACCTGGGGACCAATCCGTCCACAGAGTTTTTGTTGATCCAGGTGGCAGTCATTGTATCGCCACAGTTGTAGGCAGTGG...

Protein

Download Protein FASTA

983 aa · TkA06G054490|TK1151|PROTEIN

MELRQVFTVDLLERYAAKGHGVITCMASGNDVIVLGTSTGWLIRHDFGVGDSFDIDLSTGRPGDQSVHRVFVDPGGSHCIATVVGSGGSDTYYMHARWTKPRVLVKLRGLVVNTVAWNRQQITEASTREVILGTENGQLHEIAVDEKDKREKYVKFLFELEFAQAFEGLQMETASSNNGTRYYIMAVTRTRLYSFTGIGLLETIFASYVERAVHFMELPGEIPNSELHFFIKQRRAVHFAWLSGAGIYHGGLNFGAQNRS...

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 IDTkA06G054490
TK1151 IDTkA06G054490
OH-1004 IDLXL04_037841
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)38.100
Protein coverage (%)TK1151 33.876 / OH-1004 81.026
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 IDTkA06G054490
LocationChr06:14735480-14742029 (-)
DescriptionSimilar to VPS18: Vacuolar sorting protein 18
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g12470 Essential protein required during embryogenesis.
Distinct sets of tethering complexes, SNARE complexes, and Rab GTPases mediate membrane fusion at the vacuole in Arabidopsis.2018 · DOI: 10.1073/pnas.1717839115

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_037841 · 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:0006886 intracellular protein transport Biological Process
GO:0006904 vesicle docking involved in exocytosis Biological Process
GO:0007032 endosome organization Biological Process
GO:0007033 vacuole organization Biological Process
GO:0010015 root morphogenesis Biological Process
GO:0048284 organelle fusion Biological Process
GO:0005576 extracellular region Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005768 endosome Cellular Component
GO:0009705 plant-type vacuole membrane Cellular Component
GO:0010008 endosome membrane Cellular Component
GO:0030897 HOPS complex Cellular Component
KEGG gene cross-reference
ath:AT1G12470
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.

Cytoplasm0.529
Rank 1 · TkA06G054490 · TK1151
Golgi apparatus0.246
Rank 2 · TkA06G054490 · TK1151
Nucleus0.244
Rank 3 · TkA06G054490 · TK1151
Lysosome / Vacuole0.243
Rank 4 · TkA06G054490 · TK1151
Cell membrane0.128
Rank 5 · TkA06G054490 · 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.

PF05131Pep3_Vps1817-358 aa
PF28736VPS18_solenoid_1st373-532 aa
PF19964EAD11487-510 aa
PF00637Clathrin496-554 aa
PF28737VPS18_solenoid_2nd535-738 aa
PF19964EAD11538-576 aa
PF19964EAD11607-639 aa
PF00637Clathrin608-740 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA06G054490PF05131Pep3_Vps18173581.6e-82278.1
TkA06G054490PF28736VPS18_solenoid_1st3735321.2e-35123.8
TkA06G054490PF19964EAD114875100.02715.1
TkA06G054490PF00637Clathrin4965541.2e-0732.2
TkA06G054490PF28737VPS18_solenoid_2nd5357385.3e-62209.9
TkA06G054490PF19964EAD115385760.02715.1
TkA06G054490PF19964EAD116076390.02715.1
TkA06G054490PF00637Clathrin6087401.2e-0732.2
TkA06G054490PF18570Nup54_57_C7898050.1912.1
TkA06G054490PF19964EAD117968340.02715.1
TkA06G054490PF14634zf-RING_58298380.3111.8
TkA06G054490PF12861zf-ANAPC118308871.89.4
TkA06G054490PF12678zf-rbx18328790.01616.2
TkA06G054490PF13639zf-RING_28328370.113.6
TkA06G054490PF24921RING_XB3-XBAT318328403.88.4
TkA06G054490PF23555zf-RING_Vps418338870.0003221.0

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
F4IDS7Arabidopsis thalianasp|F4IDS7|VPS18_ARATH Vacuolar sorting protein 1878.200%Swiss-ProtHigh

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