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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

TkA03G001870
Reference: TK1151 Chr: Chr03 Coordinates: 462934-469920 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3590 bp · TkA03G001870|TK1151|cDNA

GCCACCATAAGAAGGGGTAAAGGAGATATTAATGAAACAATAGGGACCCTTGGTACAAATTTCGTCATCAACCGAACACAATAAAATGTCGGTTCTAGTTGGAACACTGATCCATACAAACTCCCAAAACTCTGTTTCTAGGGTTTCACATTCCGTTGAGCAAAACTCCCAATATTTTCATCGCAACCAGGGGAATTCAATCGGATTAAGCGTAATTCAGGAAAACTCTTGGTACAAGTATGCCGCGCCGGCGAGACGAG...

CDS

Download CDS FASTA

3150 bp · TkA03G001870|TK1151|CDS

ATGCCGCGCCGGCGAGACGAGTATGAAGAAGACGTGGACGAGGATCAGGATGACGCGATTGACGACGACGACGATGAGGATTATGGCAGTAGCCGTGGAGGCGGTGGAGGAAGCGACCGTAAGAGGAGGAGATCTGATTTTATTGATGATGTTGCCGAGGAAGATGAAGATGAAGAGGAGGAGTACGACGAATATGATGAAGATTATGGTGGCGGCGGTGGTGCGCGTCGTCGAGGAGGGAAAGCATCAAAAAAAGCATC...

Protein

Download Protein FASTA

1049 aa · TkA03G001870|TK1151|PROTEIN

MPRRRDEYEEDVDEDQDDAIDDDDDEDYGSSRGGGGGSDRKRRRSDFIDDVAEEDEDEEEEYDEYDEDYGGGGGARRRGGKASKKASGAGFFELEADVDTDAEEDEEEDGEDDFIVNERVDPHEEEDARRMHHRPLLSREDEQEDVEALERIIQERFARNRTEYDDDDATEVEQQALLPSVRDPKLWMVKCAIGHEREVAVCLMQKCIDRSSELQIRSAIALDHLKNYIYIEADKEAHVKEACKGMRNIYTGSKILLVPI...

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 IDTkA03G001870
TK1151 IDTkA03G001870
OH-1004 IDLXL04_006023
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.900
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 IDTkA03G001870
LocationChr03:462934-469920 (+)
DescriptionSimilar to At4g08350: Putative transcription elongation factor SPT5 homolog 1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g08350 May regulate transcription elongation by RNA polymerase II. No verified direct reference in this release
At2g34210 May regulate transcription elongation by RNA polymerase II. No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_006023 · 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:0000122 negative regulation of transcription by RNA polymerase II Biological Process
GO:0006357 regulation of transcription by RNA polymerase II Biological Process
GO:0006368 transcription elongation by RNA polymerase II Biological Process
GO:0006412 translation Biological Process
GO:0016239 positive regulation of macroautophagy Biological Process
GO:0032784 regulation of DNA-templated transcription elongation Biological Process
GO:0032785 negative regulation of DNA-templated transcription, elongation Biological Process
GO:0032786 positive regulation of DNA-templated transcription, elongation Biological Process
GO:0032968 positive regulation of transcription elongation by RNA polymerase II Biological Process
GO:0034243 regulation of transcription elongation by RNA polymerase II Biological Process
GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process
GO:0160239 transcription pausing by RNA polymerase II Biological Process
KEGG gene cross-reference
ath:AT2G34210
ath:AT4G08350
gga:426493
hsa:6829
mmu:20924
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.

Nucleus0.964
Rank 1 · TkA03G001870 · TK1151
Cytoplasm0.124
Rank 2 · TkA03G001870 · TK1151
Cell membrane0.014
Rank 3 · TkA03G001870 · TK1151
Mitochondrion0.011
Rank 4 · TkA03G001870 · TK1151
Endoplasmic reticulum0.009
Rank 5 · TkA03G001870 · 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.

PF11942Spt5_N9-29 aa
PF11942Spt5_N47-72 aa
PF11942Spt5_N91-179 aa
PF03439Spt5-NGN185-267 aa
PF23287KOW7_SPT5189-200 aa
PF23042KOW1_SPT5276-402 aa
PF00467KOW281-309 aa
PF23290KOW5_SPT5282-301 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G001870PF11942Spt5_N9296.5e-1247.0
TkA03G001870PF11942Spt5_N47726.5e-1247.0
TkA03G001870PF11942Spt5_N911796.5e-1247.0
TkA03G001870PF03439Spt5-NGN1852674.9e-2794.4
TkA03G001870PF23287KOW7_SPT51892007.3e-2484.1
TkA03G001870PF23042KOW1_SPT52764022.3e-33116.2
TkA03G001870PF00467KOW2813098.1e-2173.6
TkA03G001870PF23290KOW5_SPT52823012e-1659.9
TkA03G001870PF25088GPKOW_C2823130.008716.9
TkA03G001870PF25092SH3_KIN17_C2873106.87.9
TkA03G001870PF23291KOW4_SPT54294583.5e-2794.8
TkA03G001870PF23284KOW2_Spt54304796.7e-2587.4
TkA03G001870PF23287KOW7_SPT54304477.3e-2484.1
TkA03G001870PF00467KOW4304598.1e-2173.6
TkA03G001870PF23290KOW5_SPT54314582e-1659.9
TkA03G001870PF14505DUF44384314560.001319.2

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
Q9STN3Arabidopsis thalianasp|Q9STN3|SPT51_ARATH Putative transcription elongation factor SPT5 homolog 168.500%Swiss-ProtHigh
O80770Arabidopsis thalianasp|O80770|SPT52_ARATH Putative transcription elongation factor SPT5 homolog 259.600%Swiss-ProtHigh

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