Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Translocator protein.

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 g8205 g8205.t4 TTS g8205.t4 29059482 29059482
chr_2 g8205 g8205.t4 isoform g8205.t4 29059583 29060102
chr_2 g8205 g8205.t4 exon g8205.t4.exon1 29059583 29059814
chr_2 g8205 g8205.t4 cds g8205.t4.CDS1 29059583 29059814
chr_2 g8205 g8205.t4 exon g8205.t4.exon2 29059897 29060102
chr_2 g8205 g8205.t4 cds g8205.t4.CDS2 29059897 29060102
chr_2 g8205 g8205.t4 TSS g8205.t4 29060141 29060141

Sequences

>g8205.t4 Gene=g8205 Length=438
ATGAGTATTTTAAAGAATAAAATTGTCCAAATTATTATTGCGTGCTTGATTCCTTTGGTT
GGAGGATTGATTGTATCGATGACAACAATGGGAAATAAAGAACCTTGGTATTCAACAATA
AATAAGCCTTCATGGAATCCCAAAGATTGGATTTTTGCACCAGTTTGGTCTTTTCTTTAT
ATTTCAATGGGCTATGCAAGTTTTAGAGTTTATGATGAAGGTGAAGGTTTTAAAGGACAA
GCACGCTTTCCGATTATTATGTACATTATTCAATTAATTGTTAATCTAACGTGGACTCCG
GTTTTCTTTTATTATCATTTAATTGGTGCTGCAACAATTCACATTTTTGCTGTATTAGTG
ACACTAATCATCACTGGAATTCTTTTCTATAGAATTGATAAAACAGCTGGGATTTTATTC
ATACCTTATTTTGCATGG

>g8205.t4 Gene=g8205 Length=146
MSILKNKIVQIIIACLIPLVGGLIVSMTTMGNKEPWYSTINKPSWNPKDWIFAPVWSFLY
ISMGYASFRVYDEGEGFKGQARFPIIMYIIQLIVNLTWTPVFFYYHLIGAATIHIFAVLV
TLIITGILFYRIDKTAGILFIPYFAW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g8205.t4 CDD cd15904 TSPO_MBR 16 146 7.19974E-44
7 g8205.t4 Gene3D G3DSA:1.20.1260.100 - 4 146 1.3E-48
2 g8205.t4 PANTHER PTHR10057 PERIPHERAL-TYPE BENZODIAZEPINE RECEPTOR 7 146 2.2E-42
17 g8205.t4 PIRSF PIRSF005859 PBR 1 146 6.7E-41
1 g8205.t4 Pfam PF03073 TspO/MBR family 14 146 1.2E-39
9 g8205.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
13 g8205.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
12 g8205.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 49 -
16 g8205.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 71 -
8 g8205.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 72 82 -
15 g8205.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 105 -
11 g8205.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 106 110 -
14 g8205.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 111 130 -
10 g8205.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 131 146 -
4 g8205.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -
3 g8205.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -
6 g8205.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 83 105 -
5 g8205.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -

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