Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g13637 g13637.t2 TSS g13637.t2 31373914 31373914
chr_1 g13637 g13637.t2 isoform g13637.t2 31374010 31375246
chr_1 g13637 g13637.t2 exon g13637.t2.exon1 31374010 31374037
chr_1 g13637 g13637.t2 cds g13637.t2.CDS1 31374010 31374037
chr_1 g13637 g13637.t2 exon g13637.t2.exon2 31374468 31374828
chr_1 g13637 g13637.t2 cds g13637.t2.CDS2 31374468 31374828
chr_1 g13637 g13637.t2 exon g13637.t2.exon3 31374891 31375246
chr_1 g13637 g13637.t2 cds g13637.t2.CDS3 31374891 31375245
chr_1 g13637 g13637.t2 TTS g13637.t2 NA NA

Sequences

>g13637.t2 Gene=g13637 Length=745
ATGTCAGAAAACGATAATAAAAATGAAACTCAACTTGAGGAGAAGCGAAAAGATGTTGAA
CAAAGTCAAGTCAAACTTAAATATCCTCGTGCAATTCCATTCATTATTAGCAATGAATTT
TGCGAGCGTTTCAATTTCTATGGAATGAAAGCCATTTTGGTACTCTTTTTGACAAGAAAG
TTGATGTATGATGATGACATTTCGACAATTATTTACCATACTTTCAATTGTCTCGTCTAT
TTCTTCTGCATCTTTGGAGCAATCATTGCTGATTCATGGTGGGGTAAATTCAATACGATT
CTCTATTTGTCGATTGTCTATGTTATCGGAAGTGGTACTATGGCGTTAGCTGCGGTCGAG
CCTTGGATTGCTATAGATCCCGGTGCAAGAGCTTTAACAATTACTGGATTGTTTTTAATT
GCATTGGGTAGTGGTGGAATTAAACCTTGTGTTGCTGCATTTGGAGGAGAACAATTTAAA
ATGCCAGAGCAAGCTAAACAATTGGCAACCTTCTTCTCGCTCTTTTATTTCTCTATAAAT
GCCGGATCTTTAATTTCAACATCTGTCACTCCAATTTTAAGAGAAGATATTCCATGTTTT
GGTATGGATGATTGTTTCCCACTTGCTTTTGGTGTACCTGCTATTTTGATGGTTGTTGCA
ATTTTATTCTTCTTATTCGGTAAATTTTTATACAAAATTCTACCAAACCAGGGCAATATG
TTAGTCAAAGTGTGCAAATGCATTG

>g13637.t2 Gene=g13637 Length=248
MSENDNKNETQLEEKRKDVEQSQVKLKYPRAIPFIISNEFCERFNFYGMKAILVLFLTRK
LMYDDDISTIIYHTFNCLVYFFCIFGAIIADSWWGKFNTILYLSIVYVIGSGTMALAAVE
PWIAIDPGARALTITGLFLIALGSGGIKPCVAAFGGEQFKMPEQAKQLATFFSLFYFSIN
AGSLISTSVTPILREDIPCFGMDDCFPLAFGVPAILMVVAILFFLFGKFLYKILPNQGNM
LVKVCKCI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g13637.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 2 248 3.1E-77
2 g13637.t2 PANTHER PTHR11654 OLIGOPEPTIDE TRANSPORTER-RELATED 24 248 5.7E-105
3 g13637.t2 PANTHER PTHR11654:SF465 - 24 248 5.7E-105
1 g13637.t2 Pfam PF00854 POT family 97 248 4.8E-45
18 g13637.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 69 -
22 g13637.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 89 -
15 g13637.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 90 100 -
23 g13637.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 125 -
17 g13637.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 126 130 -
21 g13637.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 131 156 -
14 g13637.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 157 167 -
19 g13637.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 168 186 -
16 g13637.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 187 205 -
20 g13637.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 206 231 -
13 g13637.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 232 248 -
10 g13637.t2 ProSitePatterns PS01022 PTR2 family proton/oligopeptide symporters signature 1. 86 110 -
11 g13637.t2 ProSitePatterns PS01023 PTR2 family proton/oligopeptide symporters signature 2. 172 184 -
9 g13637.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 6 228 3.14E-19
7 g13637.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 68 90 -
4 g13637.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -
6 g13637.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 134 156 -
8 g13637.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 168 190 -
5 g13637.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 205 227 -

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:0006857 oligopeptide 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. There were no conditions that were differentially expressed