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 g8911 g8911.t2 isoform g8911.t2 33776718 33784385
chr_2 g8911 g8911.t2 exon g8911.t2.exon1 33776718 33776724
chr_2 g8911 g8911.t2 exon g8911.t2.exon2 33783678 33783992
chr_2 g8911 g8911.t2 TTS g8911.t2 33783679 33783679
chr_2 g8911 g8911.t2 cds g8911.t2.CDS1 33783792 33783992
chr_2 g8911 g8911.t2 exon g8911.t2.exon3 33784047 33784385
chr_2 g8911 g8911.t2 cds g8911.t2.CDS2 33784047 33784385
chr_2 g8911 g8911.t2 TSS g8911.t2 33784457 33784457

Sequences

>g8911.t2 Gene=g8911 Length=661
ATGCCAATTTCATCTTGCTTTGAAAAACCAGCTGTACAAATAGCTACTGCTATTTTAATT
CCAAATCTTGGCGGATGGATATCCGGAATTCAAACAAAAAAGCAAATTAAGGGCTGGTAT
GAGACTCTTGTGCTTCCAAAATGCCGTCCACCAAATTGGGTATTTCCAATAGCTTGGACT
TCTCTATATACTACAATGGGTTATGCGAGTTATATCGTTTGGAAGCAAGGACATGGTTTT
GATGGACCGGCTCATTTTCCTCTGATTTTGTATGGAGCTCAGCTTGCTTTGAACTTTGCA
TGGACACCAATCTTTTTTGTAAAGCATGAACTTAAATGGAGTTTTGTTGAAATTATTGCT
TTAACGGCTACTGCTGCTGCTACTGGAATATCATTCTACAAAATTGATAAAACTGCCGGA
CTTTTATTTGTCCCATACCTTGCTTGGCTCAGTTTTGCGAGTTATTTGAACCATTCGATA
TGGAAAAACAACACACCGGCAATCGAAGACAAGAAACCGGAAGCGGTAAAGGAAAAATAA
ATAATAAAATAACGAACAATTCCATGTTAATTAATTCTGTTAGCAGTGTCAGATATTTGA
TGCATTTCTAAATTTTTTATGCGTTTAAATAAAGATCAAATTCTACCTCAAGCAAAAAGT
T

>g8911.t2 Gene=g8911 Length=179
MPISSCFEKPAVQIATAILIPNLGGWISGIQTKKQIKGWYETLVLPKCRPPNWVFPIAWT
SLYTTMGYASYIVWKQGHGFDGPAHFPLILYGAQLALNFAWTPIFFVKHELKWSFVEIIA
LTATAAATGISFYKIDKTAGLLFVPYLAWLSFASYLNHSIWKNNTPAIEDKKPEAVKEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g8911.t2 CDD cd15904 TSPO_MBR 18 161 4.16201E-51
8 g8911.t2 Gene3D G3DSA:1.20.1260.100 - 8 165 5.8E-61
2 g8911.t2 PANTHER PTHR10057 PERIPHERAL-TYPE BENZODIAZEPINE RECEPTOR 11 170 1.2E-57
20 g8911.t2 PIRSF PIRSF005859 PBR 7 165 3.8E-51
1 g8911.t2 Pfam PF03073 TspO/MBR family 17 161 1.4E-49
12 g8911.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
19 g8911.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
10 g8911.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 52 -
15 g8911.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 74 -
14 g8911.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 75 85 -
17 g8911.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 107 -
9 g8911.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 113 -
16 g8911.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 133 -
13 g8911.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 134 138 -
18 g8911.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 139 156 -
11 g8911.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 157 179 -
7 g8911.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
3 g8911.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 74 -
5 g8911.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
4 g8911.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
6 g8911.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 139 161 -

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