General information for g8115.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 4-hydroxybenzoate polyprenyltransferase, mitochondrial.
Parent gene
- The parent gene g8115 is located on chr_2: 28647396..28648687 (+ strand)
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.t1 | TSS | g8115.t1 | 28647153 | 28647153 |
| chr_2 | g8115 | g8115.t1 | isoform | g8115.t1 | 28647396 | 28648687 |
| chr_2 | g8115 | g8115.t1 | exon | g8115.t1.exon1 | 28647396 | 28647660 |
| chr_2 | g8115 | g8115.t1 | cds | g8115.t1.CDS1 | 28647396 | 28647660 |
| chr_2 | g8115 | g8115.t1 | exon | g8115.t1.exon2 | 28647729 | 28648426 |
| chr_2 | g8115 | g8115.t1 | cds | g8115.t1.CDS2 | 28647729 | 28648426 |
| chr_2 | g8115 | g8115.t1 | exon | g8115.t1.exon3 | 28648490 | 28648687 |
| chr_2 | g8115 | g8115.t1 | cds | g8115.t1.CDS3 | 28648490 | 28648687 |
| chr_2 | g8115 | g8115.t1 | TTS | g8115.t1 | 28648726 | 28648726 |
Sequences
>g8115.t1 Gene=g8115 Length=1161
ATGCTTTTGAGACTTAAAAGTTCTCGCTTAATTGATACCAGGACTTGGAAAAAAGTGTTA
AACTATAATTTAAACTATACGACGCTTGAAATACCAAAAATTACCTTTATTAGCTCATCT
TCATTTAGCACATGCAAAAACATCAACTATAGTCCTATTAAGCAGAATGAAGCTAATACA
GTTACAAAGAACATTGTGAAAGACTATTTTGAAAAATTTCGAAGTTCACCGTATGTGAGA
ATCATGAGATTGGATCGACCCATTGGTTCATTATTGCTTTATTGGCCATGTAGTTGGTCA
ATAGCAGTGGCTGCACAACCTGGATGTATACCTGATCTTTATATGCTTGCTTTATTTGCA
TCGGGGGCAATAATAATGAGAGGAGCAGGATGCACTATAAATGATATGTGGGATAAAAAT
ATTGATGCAAAAGTGCAGAGAACAAGTACACGACCGTTAGTAACAGGAGAGATGACTCAC
TTAGATGCATGGTTTTTCCTTGGTGCACAACTTGGTTTAGGGCTTTTAATTCTCCTAGAA
CTTAATTGGAATGCGATTCTTCTCGGTGCCAGTTCATTAGGTTTAGTAATCGTCTATCCA
CTTATGAAACGTATTACTAATTGGCCTCAGTTTGTGCTCGGTATGACATTTAATTGGGGT
GCACTTCTTGGATTCTGTGCAATACATGGCGATGTCAATTGGGCTGCATGCTTGCCACTT
TATACCGCCGGCATTTGTTGGACAATTATTTATGATACAATTTATGCTCATCAAGATAGA
GTTGATGACTTAATAGTTGGTGTAAAATCTACTGCTCTTCGTTTTGGAAGAGACACTAAA
AAGTGGCTTACATGTTTTGCAGTTTTAATGAACTCAAGTTTGATAACTACTGGATTAGTT
TGTGATTTGACATGGCCATATTACGCTTCAATCTCTGTTATCGCTGCGCATATAGGACAA
CAGATATATACCTTAAATATTGACGATCCAAACGATTGCGCAAAAAAGTTTTTATCAAAT
AATCATGTGGGTTTGATATTATTTCTTGGCATAGTAATTGGCGTATTTCTTCAAAATCCT
GATACAACTAAAAATAAGGATACTACAAAGATACTTCAGAGTTTAAATTCGAATCATGTT
GTACAACTTGAAGGAAAATAG
>g8115.t1 Gene=g8115 Length=386
MLLRLKSSRLIDTRTWKKVLNYNLNYTTLEIPKITFISSSSFSTCKNINYSPIKQNEANT
VTKNIVKDYFEKFRSSPYVRIMRLDRPIGSLLLYWPCSWSIAVAAQPGCIPDLYMLALFA
SGAIIMRGAGCTINDMWDKNIDAKVQRTSTRPLVTGEMTHLDAWFFLGAQLGLGLLILLE
LNWNAILLGASSLGLVIVYPLMKRITNWPQFVLGMTFNWGALLGFCAIHGDVNWAACLPL
YTAGICWTIIYDTIYAHQDRVDDLIVGVKSTALRFGRDTKKWLTCFAVLMNSSLITTGLV
CDLTWPYYASISVIAAHIGQQIYTLNIDDPNDCAKKFLSNNHVGLILFLGIVIGVFLQNP
DTTKNKDTTKILQSLNSNHVVQLEGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g8115.t1 | CDD | cd13959 | PT_UbiA_COQ2 | 82 | 354 | 6.7391E-115 |
| 6 | g8115.t1 | Gene3D | G3DSA:1.10.357.140 | - | 89 | 238 | 4.4E-42 |
| 5 | g8115.t1 | Gene3D | G3DSA:1.20.120.1780 | - | 239 | 359 | 1.6E-11 |
| 4 | g8115.t1 | Hamap | MF_01635 | 4-hydroxybenzoate octaprenyltransferase [ubiA]. | 71 | 356 | 27.773266 |
| 2 | g8115.t1 | PANTHER | PTHR11048 | PRENYLTRANSFERASES | 59 | 357 | 5.7E-131 |
| 3 | g8115.t1 | PANTHER | PTHR11048:SF28 | 4-HYDROXYBENZOATE POLYPRENYLTRANSFERASE, MITOCHONDRIAL | 59 | 357 | 5.7E-131 |
| 1 | g8115.t1 | Pfam | PF01040 | UbiA prenyltransferase family | 93 | 339 | 2.7E-68 |
| 7 | g8115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 87 | - |
| 17 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 88 | 107 | - |
| 14 | g8115.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 108 | 112 | - |
| 19 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 137 | - |
| 9 | g8115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 138 | 157 | - |
| 16 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 158 | 179 | - |
| 11 | g8115.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 180 | 184 | - |
| 20 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 185 | 202 | - |
| 8 | g8115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 203 | 281 | - |
| 18 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 282 | 300 | - |
| 13 | g8115.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 301 | 305 | - |
| 15 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 325 | - |
| 10 | g8115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 326 | 336 | - |
| 21 | g8115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 337 | 357 | - |
| 12 | g8115.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 358 | 386 | - |
| 28 | g8115.t1 | ProSitePatterns | PS00943 | UbiA prenyltransferase family signature. | 134 | 156 | - |
| 29 | g8115.t1 | TIGRFAM | TIGR01474 | ubiA_proteo: 4-hydroxybenzoate polyprenyl transferase | 77 | 355 | 7.4E-111 |
| 25 | g8115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 176 | 198 | - |
| 23 | g8115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 211 | 228 | - |
| 24 | g8115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 232 | 251 | - |
| 27 | g8115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 282 | 301 | - |
| 26 | g8115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 357 | - |
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 transcript has been annotated with K06125 (4-hydroxybenzoate polyprenyltransferase)
Pathway
- This transcript belongs to the following pathways
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.
