Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t6 isoform g11645.t6 17610034 17610926
chr_1 g11645 g11645.t6 exon g11645.t6.exon1 17610034 17610127
chr_1 g11645 g11645.t6 cds g11645.t6.CDS1 17610035 17610127
chr_1 g11645 g11645.t6 TTS g11645.t6 17610036 17610036
chr_1 g11645 g11645.t6 exon g11645.t6.exon2 17610340 17610458
chr_1 g11645 g11645.t6 cds g11645.t6.CDS2 17610340 17610458
chr_1 g11645 g11645.t6 exon g11645.t6.exon3 17610523 17610644
chr_1 g11645 g11645.t6 cds g11645.t6.CDS3 17610523 17610644
chr_1 g11645 g11645.t6 exon g11645.t6.exon4 17610702 17610786
chr_1 g11645 g11645.t6 cds g11645.t6.CDS4 17610702 17610786
chr_1 g11645 g11645.t6 exon g11645.t6.exon5 17610863 17610926
chr_1 g11645 g11645.t6 cds g11645.t6.CDS5 17610863 17610926
chr_1 g11645 g11645.t6 TSS g11645.t6 17611018 17611018

Sequences

>g11645.t6 Gene=g11645 Length=484
ATGCTAAGTCAAATTGCAAGAATCTATCAAAATGGTGTTTCAAAATATCCATACTTAGCT
CAAGGCATACAGACAGCAGTATTGATGAGTACGGGTGATATTATTGCCCAAAAGGTCGTC
GAAAAGAAAGCATCCATTGACTATAAACGGAATGGAAATTTTTTATTGATCGGATTTGTT
GGTGGACTTGGTTTGAGAAAATGGTATGGATTTTTGAGCAATTCTATAAAGGGAAATAAT
AAGGCAATAATAGCTGTTAAAAAAGTTGGTGTTGATCAATTGGTTTTTGCACCTATCTTC
ATTGGAGTATTTATCTCAGCAGTTGGCATGCTACAAGGAAGCAAACCCAATGAAATAAAG
AAAAAATTAGAAAGAGAATATCCTGATATAATTGTGATTTTTAATGGAAAAATTATATGC
TACGTATTATTCTCTCAACTCTTTAAGAAACTTACTGAAATAAAAAGTATATTGGTAGAA
ATAA

>g11645.t6 Gene=g11645 Length=161
MLSQIARIYQNGVSKYPYLAQGIQTAVLMSTGDIIAQKVVEKKASIDYKRNGNFLLIGFV
GGLGLRKWYGFLSNSIKGNNKAIIAVKKVGVDQLVFAPIFIGVFISAVGMLQGSKPNEIK
KKLEREYPDIIVIFNGKIICYVLFSQLFKKLTEIKSILVEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g11645.t6 PANTHER PTHR11266:SF80 PEROXISOMAL MEMBRANE PROTEIN 2 6 142 7.4E-23
2 g11645.t6 PANTHER PTHR11266 PEROXISOMAL MEMBRANE PROTEIN 2, PXMP2 MPV17 6 142 7.4E-23
7 g11645.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 51 -
12 g11645.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 69 -
9 g11645.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 70 88 -
10 g11645.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 109 -
6 g11645.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 110 129 -
11 g11645.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 148 -
8 g11645.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 149 161 -
4 g11645.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 69 -
3 g11645.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 111 -
5 g11645.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 131 148 -

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.

Raw TPM values