General information for g11645.t39
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein Mpv17.
Parent gene
- The parent gene g11645 is located on chr_1: 17610166..17611018 (- 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_1 | g11645 | g11645.t39 | TTS | g11645.t39 | 17610036 | 17610036 |
| chr_1 | g11645 | g11645.t39 | isoform | g11645.t39 | 17610166 | 17610926 |
| chr_1 | g11645 | g11645.t39 | exon | g11645.t39.exon1 | 17610166 | 17610458 |
| chr_1 | g11645 | g11645.t39 | cds | g11645.t39.CDS1 | 17610166 | 17610458 |
| chr_1 | g11645 | g11645.t39 | exon | g11645.t39.exon2 | 17610523 | 17610629 |
| chr_1 | g11645 | g11645.t39 | cds | g11645.t39.CDS2 | 17610523 | 17610629 |
| chr_1 | g11645 | g11645.t39 | exon | g11645.t39.exon3 | 17610702 | 17610786 |
| chr_1 | g11645 | g11645.t39 | cds | g11645.t39.CDS3 | 17610702 | 17610786 |
| chr_1 | g11645 | g11645.t39 | exon | g11645.t39.exon4 | 17610863 | 17610926 |
| chr_1 | g11645 | g11645.t39 | cds | g11645.t39.CDS4 | 17610863 | 17610926 |
| chr_1 | g11645 | g11645.t39 | TSS | g11645.t39 | 17611018 | 17611018 |
Sequences
>g11645.t39 Gene=g11645 Length=549
ATGCTAAGTCAAATTGCAAGAATCTATCAAAATGGTGTTTCAAAATATCCATACTTAGCT
CAAGGCATACAGACAGCAGTATTGATGAGTACGGGTGATATTATTGCCCAAAAGGTCGTC
GAAAAGAAAGCATCCATTGACTATAAACGATTGATCGGATTTGTTGGTGGACTTGGTTTG
AGAAAATGGTATGGATTTTTGAGCAATTCTATAAAGGGAAATAATAAGGCAATAATAGCT
GTTAAAAAAGTTGGTGTTGATCAATTGGTTTTTGCACCTATCTTCATTGGAGTATTTATC
TCAGCAGTTGGCATGCTACAAGGAAGCAAACCCAATGAAATAAAGAAAAAATTAGAAAGA
GAATATCCTGATATATTAAAAGCTAATTATAAAATATGGCCAGCAGTACAGCTCATAAAC
TTTGCTTTTGTTCCTTTAAATTATCAAGTTGTACTTGTTCAAGTAATTGCGATTCTATGG
AACACATATATAAGTTTTAAAACTAACGAAAATACATCACCAAATGGTGATTATAATGCA
AGATTATAA
>g11645.t39 Gene=g11645 Length=182
MLSQIARIYQNGVSKYPYLAQGIQTAVLMSTGDIIAQKVVEKKASIDYKRLIGFVGGLGL
RKWYGFLSNSIKGNNKAIIAVKKVGVDQLVFAPIFIGVFISAVGMLQGSKPNEIKKKLER
EYPDILKANYKIWPAVQLINFAFVPLNYQVVLVQVIAILWNTYISFKTNENTSPNGDYNA
RL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11645.t39 | PANTHER | PTHR11266 | PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 | 6 | 172 | 3.2E-38 |
| 1 | g11645.t39 | Pfam | PF04117 | Mpv17 / PMP22 family | 104 | 165 | 1.1E-23 |
| 5 | g11645.t39 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 88 | - |
| 9 | g11645.t39 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 89 | 108 | - |
| 7 | g11645.t39 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 109 | 137 | - |
| 8 | g11645.t39 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 160 | - |
| 6 | g11645.t39 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 161 | 182 | - |
| 4 | g11645.t39 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 106 | - |
| 3 | g11645.t39 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 160 | - |
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:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K13348 (protein Mpv17)
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. There were no conditions that were differentially expressed