Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Peptide transporter family 1.

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 g13638 g13638.t2 isoform g13638.t2 31380169 31381093
chr_1 g13638 g13638.t2 exon g13638.t2.exon1 31380169 31380630
chr_1 g13638 g13638.t2 cds g13638.t2.CDS1 31380604 31380630
chr_1 g13638 g13638.t2 exon g13638.t2.exon2 31380686 31381093
chr_1 g13638 g13638.t2 cds g13638.t2.CDS2 31380686 31381093
chr_1 g13638 g13638.t2 TTS g13638.t2 31381167 31381167
chr_1 g13638 g13638.t2 TSS g13638.t2 NA NA

Sequences

>g13638.t2 Gene=g13638 Length=870
CTTGGTGGAAATGCAGCAAAGTTTGAACTTCCGCCAAATTCCTATTTTAGTGATCTTCAT
GTAAATGTACCAGAGGAAACACTTAGCTTCACTTATGCACTCACAACAAATACAGCTGGA
TGTACAGATGTAGAAGGAACAGGACAACTTAAAAATGGTGAAGCAAACAGTTTCTTCTTG
ACAGGAGCAAATGCTGTAACATCATACACTGATGACATTGATAAATCACGAAAAGGATTG
TCATCTGTTCGTATTTTGGCTAATATTGAAGCAACAAGCAATGTTGTGCTTCAACATTCA
AAAGAAGGAGCAGTTTATAATGAAACAGCAAGTAAATATGACCTTGAAGAAATTCAAACA
GGTGATTATGAAATTAAAGTGGATGGTAATGTTGTTGGAAAATATAAAATTATAATTGGT
GGAGTTTATGCAATAATGATTCATCAAAAAGGAAACCAATATGTTACTGATGTTCTTATT
GTCACCGAACCAAATTCAGTTAGTATGTTATGGTTGATACCACAATATGTCATTATGACA
CTCGGTGAAGTCATGTATTCAGTCACAGGTCTTCAATTTTCATATACACAAGCTCCTGAA
AGTATGAAGTCAGTCTTACAAGGCTGTTGGCAGCTGACTGTTGGCGTTGGAAATTTAATC
GTTACAATTATTGTTGGTGCGAAATTCTTCAATTCGCAAACATATGAATTTTTACTGTTT
GCATTGTTGATGTTTGTTGATATGGGAATATTCATGTGGCTTGGTATTCGATATAAGCCA
ATTCCTCTTGACCAATTGAAAAATGTTGAAGAAGATGACAATGAGACCAAAAAAGCTGAT
CCTTTAGATTTCAAACCTCACGACAATTAA

>g13638.t2 Gene=g13638 Length=144
MIHQKGNQYVTDVLIVTEPNSVSMLWLIPQYVIMTLGEVMYSVTGLQFSYTQAPESMKSV
LQGCWQLTVGVGNLIVTIIVGAKFFNSQTYEFLLFALLMFVDMGIFMWLGIRYKPIPLDQ
LKNVEEDDNETKKADPLDFKPHDN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13638.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 5 130 8.9E-31
8 g13638.t2 MobiDBLite mobidb-lite consensus disorder prediction 125 144 -
2 g13638.t2 PANTHER PTHR11654 OLIGOPEPTIDE TRANSPORTER-RELATED 14 124 1.6E-45
3 g13638.t2 PANTHER PTHR11654:SF465 - 14 124 1.6E-45
1 g13638.t2 Pfam PF00854 POT family 16 80 1.7E-13
13 g13638.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 23 -
16 g13638.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 43 -
11 g13638.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 44 63 -
15 g13638.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 86 -
12 g13638.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 87 91 -
14 g13638.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 111 -
10 g13638.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 144 -
7 g13638.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 23 125 2.35E-7
5 g13638.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
6 g13638.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
4 g13638.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 92 111 -

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:0016020 membrane CC
GO:0055085 transmembrane transport BP
GO:0022857 transmembrane transporter activity MF

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