Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein Mpv17.

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_1 g11645 g11645.t21 TTS g11645.t21 17610036 17610036
chr_1 g11645 g11645.t21 isoform g11645.t21 17610166 17610926
chr_1 g11645 g11645.t21 exon g11645.t21.exon1 17610166 17610458
chr_1 g11645 g11645.t21 cds g11645.t21.CDS1 17610166 17610458
chr_1 g11645 g11645.t21 exon g11645.t21.exon2 17610526 17610926
chr_1 g11645 g11645.t21 cds g11645.t21.CDS2 17610526 17610658
chr_1 g11645 g11645.t21 TSS g11645.t21 17611018 17611018

Sequences

>g11645.t21 Gene=g11645 Length=694
ATGCTAAGTCAAATTGCAAGAATCTATCAAAATGGTGTTTCAAAATATCCATACTTAGCT
CAAGGTAAATTTTTAAAAAAATAAATTTATTTACCAGAATAATCTTTTTTGCTGAAAACT
ACGTATAATAAATTTTAAAGGCATACAGACAGCAGTATTGATGAGTACGGGTGATATTAT
TGCCCAAAAGGTCGTCGAAAAGAAAGCATCCATTGACTATAAACGGTATTGAAATATATG
CTGAATTTATGCACAATTTTTTAACATTATGAAATTCTTTAGGAATGGAAATTTTTTATT
GATCGGATTTGTTGGTGGACTTGGTTTGAGAAAATGGTATGGATTTTTGAGCAATTCTAT
AAAGGGAAATAATAAGGCAATAATAGCTGTTAAAAAAGTTGTTGATCAATTGGTTTTTGC
ACCTATCTTCATTGGAGTATTTATCTCAGCAGTTGGCATGCTACAAGGAAGCAAACCCAA
TGAAATAAAGAAAAAATTAGAAAGAGAATATCCTGATATATTAAAAGCTAATTATAAAAT
ATGGCCAGCAGTACAGCTCATAAACTTTGCTTTTGTTCCTTTAAATTATCAAGTTGTACT
TGTTCAAGTAATTGCGATTCTATGGAACACATATATAAGTTTTAAAACTAACGAAAATAC
ATCACCAAATGGTGATTATAATGCAAGATTATAA

>g11645.t21 Gene=g11645 Length=141
MKFFRNGNFLLIGFVGGLGLRKWYGFLSNSIKGNNKAIIAVKKVVDQLVFAPIFIGVFIS
AVGMLQGSKPNEIKKKLEREYPDILKANYKIWPAVQLINFAFVPLNYQVVLVQVIAILWN
TYISFKTNENTSPNGDYNARL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g11645.t21 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 2 131 1.2E-32
3 g11645.t21 PANTHER PTHR11266:SF50 VACUOLAR MEMBRANE PROTEIN YOR292C 2 131 1.2E-32
1 g11645.t21 Pfam PF04117 Mpv17 / PMP22 family 63 124 6.2E-24
8 g11645.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
11 g11645.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 24 -
9 g11645.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 25 43 -
10 g11645.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 44 65 -
7 g11645.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 66 141 -
6 g11645.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 27 -
5 g11645.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 48 67 -
4 g11645.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -

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 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