Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Peroxisomal membrane protein PMP34.

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 g10087 g10087.t6 TTS g10087.t6 7317069 7317069
chr_1 g10087 g10087.t6 isoform g10087.t6 7317247 7318471
chr_1 g10087 g10087.t6 exon g10087.t6.exon1 7317247 7317924
chr_1 g10087 g10087.t6 cds g10087.t6.CDS1 7317247 7317924
chr_1 g10087 g10087.t6 exon g10087.t6.exon2 7317990 7318090
chr_1 g10087 g10087.t6 cds g10087.t6.CDS2 7317990 7318090
chr_1 g10087 g10087.t6 exon g10087.t6.exon3 7318199 7318252
chr_1 g10087 g10087.t6 cds g10087.t6.CDS3 7318199 7318199
chr_1 g10087 g10087.t6 exon g10087.t6.exon4 7318392 7318471
chr_1 g10087 g10087.t6 TSS g10087.t6 7318538 7318538

Sequences

>g10087.t6 Gene=g10087 Length=913
ATGTCTAATTCAAAGGAAGCATTATCAAATTTGTTTTCATATCACCTTTTTGTTCATGCT
ACAAGTGGAAGTTGTGCCAGTCTCGTTGCAGTCGCAGCAGTTTATCCATTTCTAACAATT
CTACAAAGAAAGCATGGATGACTTGAAAGCAGTTAGACATCTAAATTCATTTGAGCTAAT
TTATTATTTATTCAAAAAAGAAGGCTTAGGTTCAATTTATCGAGGACTGATTCCAGTAAT
GCAAAGTAGTTGCATCAGCAACTTTGTATATTTCTATGTTTTTCATTTATTGAAAAGCTT
CAAAACCAGAGATGCTCAATCAGCAGGGTCAGATTTAATACTCGGAACATTAGCTGGTTG
CATTAATGTATTAACCACCACTCCACTTTGGTGTGTAAATACAAGACTAAGAATGAACAA
TATTAACTACTCTCTCCCTTATGACAATCTCATATCTGGTCTCAAATATATTGCCAAGAA
TGAGGGAATTGAAAAATTATGGGCTGGTACTCAAGCATCTCTATTACTCTCTATTAACCC
TGCTATACAATTTTCAGTTTATGAGTCAATCAAGCGCTACTTGACAAAACTATATGGACA
AGAAAAACCTTCTGTATTTTATTTTTTCTTTCTCGGAGCCTTATCTAAAGTCATTTCAAC
CTGCATAACTTATCCACTGCAATTAGTACAAACAAAAATGAGATATGGTGATAAAAATAA
CACAAATGAAATGGGTACTATGGAATTGCTTTTACAAATTATCAAAACCAATGGATTTAA
AGGATTATATGTTGGAATGGAAGCGAAATTTCTACAGACCATATTAACAGCTGCACTCAT
GTTTTTGGCTTATGAAAAGATTGCTCGATTTGTGAAAATTTTGTTGAGAGCATCAGCAGC
TTCGACAACTTAA

>g10087.t6 Gene=g10087 Length=259
MDDLKAVRHLNSFELIYYLFKKEGLGSIYRGLIPVMQSSCISNFVYFYVFHLLKSFKTRD
AQSAGSDLILGTLAGCINVLTTTPLWCVNTRLRMNNINYSLPYDNLISGLKYIAKNEGIE
KLWAGTQASLLLSINPAIQFSVYESIKRYLTKLYGQEKPSVFYFFFLGALSKVISTCITY
PLQLVQTKMRYGDKNNTNEMGTMELLLQIIKTNGFKGLYVGMEAKFLQTILTAALMFLAY
EKIARFVKILLRASAASTT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10087.t6 Gene3D G3DSA:1.50.40.10 Mitochondrial carrier domain 3 256 6.9E-49
4 g10087.t6 PANTHER PTHR45939:SF5 PEROXISOMAL MEMBRANE PROTEIN PMP34 8 256 2.1E-83
5 g10087.t6 PANTHER PTHR45939 PEROXISOMAL MEMBRANE PROTEIN PMP34-RELATED 8 256 2.1E-83
3 g10087.t6 Pfam PF00153 Mitochondrial carrier protein 12 57 8.0E-5
2 g10087.t6 Pfam PF00153 Mitochondrial carrier protein 63 152 7.6E-18
1 g10087.t6 Pfam PF00153 Mitochondrial carrier protein 160 247 2.9E-17
16 g10087.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 27 -
20 g10087.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 48 -
19 g10087.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 49 67 -
21 g10087.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 88 -
15 g10087.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 89 160 -
23 g10087.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 161 182 -
18 g10087.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 183 225 -
22 g10087.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 226 243 -
17 g10087.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 244 259 -
14 g10087.t6 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 1 56 9.684
12 g10087.t6 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 62 149 17.836
13 g10087.t6 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 159 246 18.201
10 g10087.t6 SUPERFAMILY SSF103506 Mitochondrial carrier 8 242 5.23E-50
6 g10087.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 53 -
7 g10087.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 68 90 -
9 g10087.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 161 183 -
8 g10087.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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