Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Peroxisomal membrane protein 2.

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_2 g7364 g7364.t7 TSS g7364.t7 23399094 23399094
chr_2 g7364 g7364.t7 isoform g7364.t7 23399150 23400621
chr_2 g7364 g7364.t7 exon g7364.t7.exon1 23399150 23399238
chr_2 g7364 g7364.t7 cds g7364.t7.CDS1 23399150 23399238
chr_2 g7364 g7364.t7 exon g7364.t7.exon2 23399307 23400117
chr_2 g7364 g7364.t7 cds g7364.t7.CDS2 23399307 23399775
chr_2 g7364 g7364.t7 TTS g7364.t7 23400127 23400127
chr_2 g7364 g7364.t7 exon g7364.t7.exon3 23400334 23400621

Sequences

>g7364.t7 Gene=g7364 Length=1188
ATGGCTTTATCAAGACCAATTTATAACTTTCTTGGCTTTTATTTTGAACAACTTTTCAAT
CATCCCGTTAGAACAAAATCAATAACAAGCTGCACAGTTGCAACGGCCGGTGCCTTAGCT
TCACAATCACTCTCAGGACAAAAAATCAACCCACGAGCAGTTTTTGCATATTCAATTTTT
GGACTTTTATTTGGCGGTTCTGTGCCACATTATTTCTTTAACTTTTTTGAGTCTGTTGTT
CCTGATGTCCCTTATAAAAAGCTCATTGAGTTTTTACTTGAACGTTCAGTGTTTGCACCT
GTTTTTACTGCTATGAGTCTTTACTTCTTATCAATTTTCGAAGGAAAGAGTCCTGAACAA
GCACTCAAGACATTGCAACAATTATATTTAACGGTATTGACAACAAACTGGAGATACCTA
TCATTACCCGTCTTTATCAATTTCAATTTTGTTCCTCTGTTTCTTCGTGTTTTCGTCGCC
AATCTCATTGGCTTTTTCTGGATTATTTATTTAGCTGATAAGAGACGTAGAGCAGCAGCA
AAAAAAGAAAATAACTAAATATTATACACAGAGATAATGATTGAGTGAGAAAGATAAAGA
TTATTAAGGTGGTTTGTGTGACATTCCTTCTATTACATTATTAACTGCATACAAGTGCGG
TGTAATGCTTAATATTTCATTATTTTACATTTATCAATGGGTTTTATGGGCTGAAATAAT
CATCAATTCTGAAATGGACTTAATCAATTCTTAGAATTAAAAACATTTTGTAACATTTAT
TATTATTACTGTAATATCATAATTTTTATTTAATATCATGGAATATGTTATTAATTGCTT
TTATTTAGTACAAGAAAGAATAAAGAATTTGAGTAATTTTTCTAGATAAATAAAATTTAA
TAAGATTTAAATTAGTTATTTATTGTTAATTATTATAAATGGAGTGTGAGTTAGAAACCA
ATAACTTACCAACTGAAAATTAAGCAATAAAGGTAATAATGTTGTTTTAAAAAATTATAA
AATATTCAACTACAAATTACTTCTTATGTAAAAGATTTATTGAAACAAAAAAAATATAAT
GAAAATCAAAATTATTGCTAATCTAAGAAAGTGAAAAGAGAACAAAATAAATCGCTTATA
AGTTTAATTGAAGCACACATAAAATCCATAATGTAAAAAAAACTTTCT

>g7364.t7 Gene=g7364 Length=185
MALSRPIYNFLGFYFEQLFNHPVRTKSITSCTVATAGALASQSLSGQKINPRAVFAYSIF
GLLFGGSVPHYFFNFFESVVPDVPYKKLIEFLLERSVFAPVFTAMSLYFLSIFEGKSPEQ
ALKTLQQLYLTVLTTNWRYLSLPVFINFNFVPLFLRVFVANLIGFFWIIYLADKRRRAAA
KKENN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g7364.t7 PANTHER PTHR11266:SF80 PEROXISOMAL MEMBRANE PROTEIN 2 11 172 2.4E-30
3 g7364.t7 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 11 172 2.4E-30
1 g7364.t7 Pfam PF04117 Mpv17 / PMP22 family 112 171 1.5E-15
7 g7364.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 53 -
13 g7364.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -
10 g7364.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 77 95 -
12 g7364.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 96 115 -
6 g7364.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 116 126 -
14 g7364.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 127 147 -
9 g7364.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 148 152 -
11 g7364.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 153 172 -
8 g7364.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 173 185 -
5 g7364.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -
4 g7364.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 150 172 -

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