Gene loci information

Transcript annotation

  • This transcript has been annotated as 4-hydroxybenzoate polyprenyltransferase, mitochondrial.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g8115 g8115.t5 TSS g8115.t5 28647153 28647153
chr_2 g8115 g8115.t5 isoform g8115.t5 28647396 28648687
chr_2 g8115 g8115.t5 exon g8115.t5.exon1 28647396 28647660
chr_2 g8115 g8115.t5 cds g8115.t5.CDS1 28647396 28647660
chr_2 g8115 g8115.t5 exon g8115.t5.exon2 28647729 28648243
chr_2 g8115 g8115.t5 cds g8115.t5.CDS2 28647729 28648243
chr_2 g8115 g8115.t5 exon g8115.t5.exon3 28648307 28648426
chr_2 g8115 g8115.t5 cds g8115.t5.CDS3 28648307 28648426
chr_2 g8115 g8115.t5 exon g8115.t5.exon4 28648490 28648687
chr_2 g8115 g8115.t5 cds g8115.t5.CDS4 28648490 28648687
chr_2 g8115 g8115.t5 TTS g8115.t5 28648726 28648726

Sequences

>g8115.t5 Gene=g8115 Length=1098
ATGCTTTTGAGACTTAAAAGTTCTCGCTTAATTGATACCAGGACTTGGAAAAAAGTGTTA
AACTATAATTTAAACTATACGACGCTTGAAATACCAAAAATTACCTTTATTAGCTCATCT
TCATTTAGCACATGCAAAAACATCAACTATAGTCCTATTAAGCAGAATGAAGCTAATACA
GTTACAAAGAACATTGTGAAAGACTATTTTGAAAAATTTCGAAGTTCACCGTATGTGAGA
ATCATGAGATTGGATCGACCCATTGGTTCATTATTGCTTTATTGGCCATGTAGTTGGTCA
ATAGCAGTGGCTGCACAACCTGGATGTATACCTGATCTTTATATGCTTGCTTTATTTGCA
TCGGGGGCAATAATAATGAGAGGAGCAGGATGCACTATAAATGATATGTGGGATAAAAAT
ATTGATGCAAAAGTGCAGAGAACAAGTACACGACCGTTAGTAACAGGAGAGATGACTCAC
TTAGATGCATGGTTTTTCCTTGGTGCACAACTTGGTTTAGGGCTTTTAATTCTCCTAGAA
CTTAATTGGAATGCGATTCTTCTCGGTGCCAGTTCATTAGGTTTAGTAATCGTCTATCCA
CTTATGAAACGTATTACTAATTGGCCTCAGTTTGTGCTCGGTATGACATTTAATTGGGGT
GCACTTCTTGGATTCTGTGCAATACATGGCGATGTCAATTGGGCTGCATGCTTGCCACTT
TATACCGCCGGCATTTGTTGGACAATTATTTATGATACAATTTATGCTCATCAAGATAGA
TGGCTTACATGTTTTGCAGTTTTAATGAACTCAAGTTTGATAACTACTGGATTAGTTTGT
GATTTGACATGGCCATATTACGCTTCAATCTCTGTTATCGCTGCGCATATAGGACAACAG
ATATATACCTTAAATATTGACGATCCAAACGATTGCGCAAAAAAGTTTTTATCAAATAAT
CATGTGGGTTTGATATTATTTCTTGGCATAGTAATTGGCGTATTTCTTCAAAATCCTGAT
ACAACTAAAAATAAGGATACTACAAAGATACTTCAGAGTTTAAATTCGAATCATGTTGTA
CAACTTGAAGGAAAATAG

>g8115.t5 Gene=g8115 Length=365
MLLRLKSSRLIDTRTWKKVLNYNLNYTTLEIPKITFISSSSFSTCKNINYSPIKQNEANT
VTKNIVKDYFEKFRSSPYVRIMRLDRPIGSLLLYWPCSWSIAVAAQPGCIPDLYMLALFA
SGAIIMRGAGCTINDMWDKNIDAKVQRTSTRPLVTGEMTHLDAWFFLGAQLGLGLLILLE
LNWNAILLGASSLGLVIVYPLMKRITNWPQFVLGMTFNWGALLGFCAIHGDVNWAACLPL
YTAGICWTIIYDTIYAHQDRWLTCFAVLMNSSLITTGLVCDLTWPYYASISVIAAHIGQQ
IYTLNIDDPNDCAKKFLSNNHVGLILFLGIVIGVFLQNPDTTKNKDTTKILQSLNSNHVV
QLEGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
27 g8115.t5 CDD cd13959 PT_UbiA_COQ2 82 333 2.80762E-98
7 g8115.t5 Gene3D G3DSA:1.10.357.140 - 89 238 3.9E-42
6 g8115.t5 Hamap MF_01635 4-hydroxybenzoate octaprenyltransferase [ubiA]. 71 335 23.837767
2 g8115.t5 PANTHER PTHR11048 PRENYLTRANSFERASES 59 260 1.6E-111
4 g8115.t5 PANTHER PTHR11048:SF28 4-HYDROXYBENZOATE POLYPRENYLTRANSFERASE, MITOCHONDRIAL 59 260 1.6E-111
3 g8115.t5 PANTHER PTHR11048 PRENYLTRANSFERASES 260 336 1.6E-111
5 g8115.t5 PANTHER PTHR11048:SF28 4-HYDROXYBENZOATE POLYPRENYLTRANSFERASE, MITOCHONDRIAL 260 336 1.6E-111
1 g8115.t5 Pfam PF01040 UbiA prenyltransferase family 93 260 2.1E-49
8 g8115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 87 -
22 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 88 107 -
17 g8115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 108 112 -
23 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 113 137 -
10 g8115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 138 157 -
20 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 158 179 -
13 g8115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 180 184 -
21 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 185 202 -
11 g8115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 203 210 -
25 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 211 230 -
15 g8115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 231 235 -
19 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 236 254 -
12 g8115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 255 260 -
18 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 261 279 -
16 g8115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 280 284 -
26 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 285 304 -
9 g8115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 305 315 -
24 g8115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 316 336 -
14 g8115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 337 365 -
33 g8115.t5 ProSitePatterns PS00943 UbiA prenyltransferase family signature. 134 156 -
30 g8115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -
28 g8115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 211 228 -
29 g8115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 232 251 -
32 g8115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 264 286 -
31 g8115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 317 336 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups MF
GO:0004659 prenyltransferase activity MF
GO:0016021 integral component of membrane CC

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed