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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

TkA01G055480
Reference: TK1151 Chr: Chr01 Coordinates: 14369205-14372342 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2220 bp · TkA01G055480|TK1151|cDNA

AATACCCCCATCAAACGATCACTTCGAAGGTCATCGAAGGGCAAAATCGTCGTTTTAGTCTTCACCCACCTCAAAATCCCGCCAACACGTTTGTGGTGTGTGGGAAAGATGAAGCTATCTTCCTCAAAACAACACTTTCCTCTGTTTTCTCCTTCTAATGGCACCTCTAAGTTACACTTCACTACCCTCATCAAACCCTCATTTACACATTCTCACCTCCATTTTCCCTATGCACATGCTCTCGACGCTTCTTCTTCCTC...

CDS

Download CDS FASTA

930 bp · TkA01G055480|TK1151|CDS

AATACCCCCATCAAACGATCACTTCGAAGGTCATCGAAGGGCAAAATCGTCGTTTTAGTCTTCACCCACCTCAAAATCCCGCCAACACGTTTGTGGTGTGTGGGAAAGATGAAGCTATCTTCCTCAAAACAACACTTTCCTCTGTTTTCTCCTTCTAATGGCACCTCTAAGTTACACTTCACTACCCTCATCAAACCCTCATTTACACATTCTCACCTCCATTTTCCCTATGCACATGCTCTCGACGCTTCTTCTTCCTC...

Protein

Download Protein FASTA

309 aa · TkA01G055480|TK1151|PROTEIN

NTPIKRSLRRSSKGKIVVLVFTHLKIPPTRLWCVGKMKLSSSKQHFPLFSPSNGTSKLHFTTLIKPSFTHSHLHFPYAHALDASSSSSAASTPAPVLGQDAIPVELDDTESGEAANQTLDDLLVVRRPVMESTDDGEYGEDDDVESEIDQESSSFTSTSSVIDTNLSNFAMKMPIFEPKRVGSSSTSETPLVVNLDLALYKAKVLARNFRYKEAEEVLQKCISIWPEDGRCYVALGKILGKQSKSNEARAVYEKGCQATQ...

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 IDTkA01G055480
TK1151 IDTkA01G055480
OH-1004 IDLXL04_005405
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)89.000
Protein coverage (%)TK1151 88.673 / OH-1004 36.836
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 IDTkA01G055480
LocationChr01:14369205-14372342 (+)
DescriptionSimilar to HCF107: Protein high chlorophyll fluorescent 107
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g17040 Involved, directly or indirectly, in the processing of chloroplast encoded mRNAs.
The nucleus-encoded HCF107 gene of Arabidopsis provides a link between intercistronic RNA processing and the accumulation of translation-competent psbH transcripts in chloroplasts.2001 · DOI: 10.1105/tpc.010090
The nuclear gene HCF107 encodes a membrane-associated R-TPR (RNA tetratricopeptide repeat)-containing protein involved in expression of the plastidial psbH gene in Arabidopsis.2005 · DOI: 10.1111/j.1365-313x.2005.02409.x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005405 · 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:0000244 spliceosomal tri-snRNP complex assembly Biological Process
GO:0000245 spliceosomal complex assembly Biological Process
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0006396 RNA processing Biological Process
GO:0006397 mRNA processing Biological Process
GO:0006417 regulation of translation Biological Process
GO:0009657 plastid organization Biological Process
GO:0010114 response to red light Biological Process
GO:0045292 mRNA cis splicing, via spliceosome Biological Process
GO:0000325 plant-type vacuole Cellular Component
GO:0000974 Prp19 complex Cellular Component
GO:0005634 nucleus Cellular Component
KEGG gene cross-reference
ath:AT3G17040
spo:2541185
yli:2907810
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.

Plastid0.917
Rank 1 · TkA01G055480 · TK1151
Nucleus0.079
Rank 2 · TkA01G055480 · TK1151
Mitochondrion0.051
Rank 3 · TkA01G055480 · TK1151
Cytoplasm0.043
Rank 4 · TkA01G055480 · TK1151
Cell membrane0.021
Rank 5 · TkA01G055480 · 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.

PF29386CFAP70_mid_TPR79-113 aa
PF13428TPR_14196-238 aa
PF12895ANAPC3198-254 aa
PF25063ARM_TT21_C199-264 aa
PF13174TPR_6199-227 aa
PF13424TPR_12200-257 aa
PF07719TPR_2200-224 aa
PF00515TPR_1201-228 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G055480PF29386CFAP70_mid_TPR791130.002918.6
TkA01G055480PF13428TPR_141962386.7e-0730.1
TkA01G055480PF12895ANAPC31982540.01416.4
TkA01G055480PF25063ARM_TT21_C1992640.01316.1
TkA01G055480PF13174TPR_61992270.2312.9
TkA01G055480PF13424TPR_122002571.9e-0525.5
TkA01G055480PF07719TPR_22002240.0002221.8
TkA01G055480PF00515TPR_12012280.00417.6
TkA01G055480PF13181TPR_82022248.8e-0626.2
TkA01G055480PF13374TPR_102022250.00119.7
TkA01G055480PF29386CFAP70_mid_TPR2032870.002918.6
TkA01G055480PF17840Tugs2032200.2212.4
TkA01G055480PF14559TPR_192082620.007117.4
TkA01G055480PF29407CFAP70_TPR_C2092630.003217.7
TkA01G055480PF13431TPR_172182500.1513.1
TkA01G055480PF13181TPR_82302578.8e-0626.2

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
Q8RWG2Arabidopsis thalianasp|Q8RWG2|CF107_ARATH Protein high chlorophyll fluorescent 10758.300%Swiss-ProtMedium

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