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.t28 TTS g11645.t28 17610036 17610036
chr_1 g11645 g11645.t28 isoform g11645.t28 17610166 17610926
chr_1 g11645 g11645.t28 exon g11645.t28.exon1 17610166 17610382
chr_1 g11645 g11645.t28 cds g11645.t28.CDS1 17610166 17610382
chr_1 g11645 g11645.t28 exon g11645.t28.exon2 17610519 17610644
chr_1 g11645 g11645.t28 cds g11645.t28.CDS2 17610519 17610644
chr_1 g11645 g11645.t28 exon g11645.t28.exon3 17610702 17610786
chr_1 g11645 g11645.t28 cds g11645.t28.CDS3 17610702 17610786
chr_1 g11645 g11645.t28 exon g11645.t28.exon4 17610863 17610926
chr_1 g11645 g11645.t28 cds g11645.t28.CDS4 17610863 17610926
chr_1 g11645 g11645.t28 TSS g11645.t28 17611018 17611018

Sequences

>g11645.t28 Gene=g11645 Length=492
ATGCTAAGTCAAATTGCAAGAATCTATCAAAATGGTGTTTCAAAATATCCATACTTAGCT
CAAGGCATACAGACAGCAGTATTGATGAGTACGGGTGATATTATTGCCCAAAAGGTCGTC
GAAAAGAAAGCATCCATTGACTATAAACGGAATGGAAATTTTTTATTGATCGGATTTGTT
GGTGGACTTGGTTTGAGAAAATGGTATGGATTTTTGAGCAATTCTATAAAGGGAAATAAT
AAGGCAATAATAGCTGTTAAAAAAGTTGGTGGTATCAATGAAATAAAGAAAAAATTAGAA
AGAGAATATCCTGATATATTAAAAGCTAATTATAAAATATGGCCAGCAGTACAGCTCATA
AACTTTGCTTTTGTTCCTTTAAATTATCAAGTTGTACTTGTTCAAGTAATTGCGATTCTA
TGGAACACATATATAAGTTTTAAAACTAACGAAAATACATCACCAAATGGTGATTATAAT
GCAAGATTATAA

>g11645.t28 Gene=g11645 Length=163
MLSQIARIYQNGVSKYPYLAQGIQTAVLMSTGDIIAQKVVEKKASIDYKRNGNFLLIGFV
GGLGLRKWYGFLSNSIKGNNKAIIAVKKVGGINEIKKKLEREYPDILKANYKIWPAVQLI
NFAFVPLNYQVVLVQVIAILWNTYISFKTNENTSPNGDYNARL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g11645.t28 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 6 89 2.4E-27
3 g11645.t28 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 93 153 2.4E-27
1 g11645.t28 Pfam PF04117 Mpv17 / PMP22 family 92 146 4.3E-22
6 g11645.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 51 -
9 g11645.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 69 -
7 g11645.t28 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 70 118 -
8 g11645.t28 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 141 -
5 g11645.t28 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 142 163 -
4 g11645.t28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 119 141 -

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