Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Peroxisomal membrane protein 11C.

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_3 g949 g949.t5 TSS g949.t5 7016912 7016912
chr_3 g949 g949.t5 isoform g949.t5 7016957 7018446
chr_3 g949 g949.t5 exon g949.t5.exon1 7016957 7017019
chr_3 g949 g949.t5 exon g949.t5.exon2 7017500 7017871
chr_3 g949 g949.t5 cds g949.t5.CDS1 7017537 7017871
chr_3 g949 g949.t5 exon g949.t5.exon3 7018164 7018446
chr_3 g949 g949.t5 cds g949.t5.CDS2 7018164 7018446
chr_3 g949 g949.t5 TTS g949.t5 7018694 7018694

Sequences

>g949.t5 Gene=g949 Length=718
ATGCCAAATCATATTTTAGGGGAAATTTGCTCAATGCTTGACACTTACACAGGTCGAGAC
AAAATAGATTGTTCGAACATTATGTTATACGGCAAAATTAATGTCTGCAATTCAAGCTGA
GAAAGGTAACGATGATTATGCCAAAAAATTTGCAATTTTTAGTACGAAGATGTCCCAAAC
ACGTGCAAACTTGAGATTATTTGATGACATTCCAATGATTCAATACTCGCTTGAATATGG
TTTAGGAGAAAAGGAACCTGATCGAATGATGGCAATGATTGGTGTAATTACAAATATTGT
AGATCATTTGTATTATCCTGTAGATAAAATTTGTTGGGCCATTGATTCAAAAATTTTGAA
TCCAAAGAACCCAGAAAAATGGGACACTTTAAACAGTGTGTTTTGGGCGGCATCAATTTA
TTTGAACCTAATGAAGACTATTAGACTTGTTTACATCATGCGTCTTCATCGGCAAAATAT
TGATAAAATAGAAAATGAGAGTGCTGTTGCTTTGAAGAAGCTCGAAGCAAAGGAACGAAT
GGAAATGATTAGTATTTTTAGACTTACACTTGATTTTGTTCATGCTTCATCAACCCTTCC
GTCCGGCTGGCTTTGGGGTGGAAAATTATCTACATTTTCAGTTGGACTCATAGGTAGCAC
TTCCTCGTTAATTGGTCTTTATCAGTATTTTGCAAAGAAGCGACTTGCGAAAAGTTAA

>g949.t5 Gene=g949 Length=205
MSAIQAEKGNDDYAKKFAIFSTKMSQTRANLRLFDDIPMIQYSLEYGLGEKEPDRMMAMI
GVITNIVDHLYYPVDKICWAIDSKILNPKNPEKWDTLNSVFWAASIYLNLMKTIRLVYIM
RLHRQNIDKIENESAVALKKLEAKERMEMISIFRLTLDFVHASSTLPSGWLWGGKLSTFS
VGLIGSTSSLIGLYQYFAKKRLAKS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g949.t5 Coils Coil Coil 127 147 -
2 g949.t5 PANTHER PTHR20990 PEROXISOMAL BIOGENESIS FACTOR 11 4 200 1.6E-62
1 g949.t5 Pfam PF05648 Peroxisomal biogenesis factor 11 (PEX11) 6 196 8.0E-38
9 g949.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 99 -
11 g949.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 120 -
6 g949.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 151 -
10 g949.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 172 -
8 g949.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 173 177 -
12 g949.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 178 197 -
7 g949.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 198 205 -
3 g949.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -
4 g949.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -

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:0005779 integral component of peroxisomal membrane CC
GO:0016559 peroxisome fission BP

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.

Raw TPM values