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.t2 isoform g11645.t2 17610019 17610926
chr_1 g11645 g11645.t2 exon g11645.t2.exon1 17610019 17610458
chr_1 g11645 g11645.t2 TTS g11645.t2 17610036 17610036
chr_1 g11645 g11645.t2 cds g11645.t2.CDS1 17610166 17610458
chr_1 g11645 g11645.t2 exon g11645.t2.exon2 17610523 17610644
chr_1 g11645 g11645.t2 cds g11645.t2.CDS2 17610523 17610644
chr_1 g11645 g11645.t2 exon g11645.t2.exon3 17610702 17610778
chr_1 g11645 g11645.t2 cds g11645.t2.CDS3 17610702 17610766
chr_1 g11645 g11645.t2 exon g11645.t2.exon4 17610863 17610926
chr_1 g11645 g11645.t2 TSS g11645.t2 17611018 17611018

Sequences

>g11645.t2 Gene=g11645 Length=703
ATGCTAAGTCAAATTGCAAGAATCTATCAAAATGGTGTTTCAAAATATCCATACTTAGCT
CAAGACAGCAGTATTGATGAGTACGGGTGATATTATTGCCCAAAAGGTCGTCGAAAAGAA
AGCATCCATTGACTATAAACGGAATGGAAATTTTTTATTGATCGGATTTGTTGGTGGACT
TGGTTTGAGAAAATGGTATGGATTTTTGAGCAATTCTATAAAGGGAAATAATAAGGCAAT
AATAGCTGTTAAAAAAGTTGGTGTTGATCAATTGGTTTTTGCACCTATCTTCATTGGAGT
ATTTATCTCAGCAGTTGGCATGCTACAAGGAAGCAAACCCAATGAAATAAAGAAAAAATT
AGAAAGAGAATATCCTGATATATTAAAAGCTAATTATAAAATATGGCCAGCAGTACAGCT
CATAAACTTTGCTTTTGTTCCTTTAAATTATCAAGTTGTACTTGTTCAAGTAATTGCGAT
TCTATGGAACACATATATAAGTTTTAAAACTAACGAAAATACATCACCAAATGGTGATTA
TAATGCAAGATTATAAATAATATAAAGATCTAACTTGTTAATTAACGATACCAAATTGTG
ATTTTTAATGGAAAAATTATATGCTACGTATTATTCTCTCAACTCTTTAAGAAACTTACT
GAAATAAAAAGTATATTGGTAGAAATAAAATAAAAATTTCTTT

>g11645.t2 Gene=g11645 Length=159
MSTGDIIAQKVVEKKASIDYKRNGNFLLIGFVGGLGLRKWYGFLSNSIKGNNKAIIAVKK
VGVDQLVFAPIFIGVFISAVGMLQGSKPNEIKKKLEREYPDILKANYKIWPAVQLINFAF
VPLNYQVVLVQVIAILWNTYISFKTNENTSPNGDYNARL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g11645.t2 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 1 149 6.4E-37
1 g11645.t2 Pfam PF04117 Mpv17 / PMP22 family 81 142 8.1E-24
7 g11645.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 23 -
9 g11645.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 41 -
8 g11645.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 42 60 -
10 g11645.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
6 g11645.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 84 159 -
4 g11645.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 24 41 -
5 g11645.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
3 g11645.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 137 -

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

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.

Raw TPM values