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.t9 isoform g13637.t9 31375416 31376878
chr_1 g13637 g13637.t9 exon g13637.t9.exon1 31375416 31376385
chr_1 g13637 g13637.t9 cds g13637.t9.CDS1 31375513 31376385
chr_1 g13637 g13637.t9 exon g13637.t9.exon2 31376447 31376529
chr_1 g13637 g13637.t9 cds g13637.t9.CDS2 31376447 31376529
chr_1 g13637 g13637.t9 exon g13637.t9.exon3 31376583 31376626
chr_1 g13637 g13637.t9 cds g13637.t9.CDS3 31376583 31376626
chr_1 g13637 g13637.t9 exon g13637.t9.exon4 31376685 31376878
chr_1 g13637 g13637.t9 cds g13637.t9.CDS4 31376685 31376878
chr_1 g13637 g13637.t9 TSS g13637.t9 NA NA
chr_1 g13637 g13637.t9 TTS g13637.t9 NA NA

Sequences

>g13637.t9 Gene=g13637 Length=1291
AATTCTTCTTAACATCCTTGTACTTTATTTACCGTTGCCATTTTTCTGGGCACTTTTCGA
TCAACAAGGTTCACGTTGGACATTCCAAGCAACTCGCATGGATGGCGATATTGGCTTTTA
CACAATCAAACCTGATCAAATGCAAGTCGTAAATCCATTACTCATTCTTATTTTCATTCC
ACTCTACGAAGTCGCATTTTATCCACTTCTCAATCTTATCGGAATTCGGCGACCACTTCA
AAAGTTGACATTAGGCGGTATTTTTGCTGGTGTTGCTTTCGTCATTTCAGCTATTGTTGA
GATTAATTTGGAACCAACATACGCTGTGCTTCCTGATTGGGGACAAGCTCAGTTGAGATT
TTATAATGGAAGAAATTGCAATTATAGAATCACTACAAATATTCCTGGTCATACAACGAT
CAATGTGGCTGCATACGAATATTGGGAGGAAAAATTCATTGATATCAATAATGGACGTCA
ATTCTTTTCATACAGTTTTAGTTCAACATCAAATGGTTGCACCGGTGATACAAATACAGG
TGTTTGGCATGTTGAAGAGCGCACTGCAAAAAGTTTCTTCTTGACTGGAACTAATAATCT
TGCTTTACATGAATTTGAAGACAGTACTGAGAAATCAAGACGTGGTTGGCCCTTTATCAC
TGTTCTTGCCAATTTACAAACAAATAATACCAATATTAGACTTTTGGAAGATGGCAAAAA
TGAAAGATATAATGAACCACCTACATTTATGAATCAAACTGATATTCAAGCAAATAAAAA
CTATGAAATTTTTGTTGGTAATACACGGGTTGCAAATGACGTTCATTTGGCTTTAGGTGG
TGTTTATTCTTTGATGATTACTCAAACATCAGCTTCAGGTTATAATGTTAAACTTGTTAC
TGTTACTGATCCCAATTCGGTTAGTATGTTATGGTTGATACCACAATATGTCATTATGAC
ACTTGGTGAAGTCATGTTTTCAGTCACGGGTTTGGAATTTTCATTTACACAAGCACCAGA
GAGTATGAAATCTGTTATTCAAGGATGCTGGATGTTGACTGTTGCGTTTGGAAACTTGAT
TGTTGTCATTATCACTGGCGCGAAATTCTTTGATTCACAAACTTATGAGTTCTTCTTGTT
TGCTGGTTTGATGTTTGTTGATATGATTCTCTTCAGTTGGCTTGCATATCGTTACAAAGC
TATTCCATTGGAACTTTTGCAAGATATTGATGAGAACAAGGATGAAAAGAAACCAGCGTT
GGAATTTAACAATAACACAACCGAAAATTAA

>g13637.t9 Gene=g13637 Length=397
MDGDIGFYTIKPDQMQVVNPLLILIFIPLYEVAFYPLLNLIGIRRPLQKLTLGGIFAGVA
FVISAIVEINLEPTYAVLPDWGQAQLRFYNGRNCNYRITTNIPGHTTINVAAYEYWEEKF
IDINNGRQFFSYSFSSTSNGCTGDTNTGVWHVEERTAKSFFLTGTNNLALHEFEDSTEKS
RRGWPFITVLANLQTNNTNIRLLEDGKNERYNEPPTFMNQTDIQANKNYEIFVGNTRVAN
DVHLALGGVYSLMITQTSASGYNVKLVTVTDPNSVSMLWLIPQYVIMTLGEVMFSVTGLE
FSFTQAPESMKSVIQGCWMLTVAFGNLIVVIITGAKFFDSQTYEFFLFAGLMFVDMILFS
WLAYRYKAIPLELLQDIDENKDEKKPALEFNNNTTEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g13637.t9 PANTHER PTHR11654 OLIGOPEPTIDE TRANSPORTER-RELATED 1 372 6.5E-101
4 g13637.t9 PANTHER PTHR11654:SF465 - 1 372 6.5E-101
2 g13637.t9 Pfam PF00854 POT family 1 90 7.2E-19
1 g13637.t9 Pfam PF00854 POT family 267 332 2.1E-13
15 g13637.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
18 g13637.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 38 -
11 g13637.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 39 49 -
21 g13637.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 67 -
14 g13637.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 68 276 -
20 g13637.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 277 301 -
13 g13637.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 302 312 -
19 g13637.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 313 333 -
16 g13637.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 334 344 -
17 g13637.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 345 364 -
12 g13637.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 365 397 -
10 g13637.t9 SUPERFAMILY SSF103473 MFS general substrate transporter 270 373 5.75E-6
6 g13637.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
9 g13637.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 242 264 -
8 g13637.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 279 301 -
5 g13637.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 313 335 -
7 g13637.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 345 364 -

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