Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Proton-coupled amino acid transporter 4.

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 g13733 g13733.t2 isoform g13733.t2 32131866 32134669
chr_1 g13733 g13733.t2 exon g13733.t2.exon1 32131866 32132039
chr_1 g13733 g13733.t2 TSS g13733.t2 32131872 32131872
chr_1 g13733 g13733.t2 exon g13733.t2.exon2 32133688 32134023
chr_1 g13733 g13733.t2 cds g13733.t2.CDS1 32133762 32134023
chr_1 g13733 g13733.t2 exon g13733.t2.exon3 32134079 32134465
chr_1 g13733 g13733.t2 cds g13733.t2.CDS2 32134079 32134465
chr_1 g13733 g13733.t2 exon g13733.t2.exon4 32134527 32134669
chr_1 g13733 g13733.t2 cds g13733.t2.CDS3 32134527 32134669
chr_1 g13733 g13733.t2 TTS g13733.t2 NA NA

Sequences

>g13733.t2 Gene=g13733 Length=1040
GAGTATCAGTCTTACGTTGAACGTCGAATAGTTTAAAACTGCATCGATAGTGACCGTCAA
AATTAGAACTGATTTTAGACGCTCTCTTTCTTCTTATAAGAATTTTTGTTGTTTTCTTAT
TTATGGAATATTTTTAACCAAACTTCTGTGTGAACAACTAATGATAAAAATTGCATGACA
AAAATATTGAGAACAAAATTCTCACGGAAAATCTGCTGCCGAAGGGTGAACAGAACAACA
ATATTGATATGGAACTCAATGGCAGTAGTAATGTGATTGTAAATGAAAATTATAGACGAT
CAGCGGATAAAGATTTTGATCAATTACATCCTGCTGTAGTTAAATTGAAAGCAGCAGCAG
AAAATGGAAGTAGTGTAAAAAATAGAAATACTGAACCAAATAACAATGAAAGACCACATC
CAAAAACTACATATTTGGAAACTTTGATGCACTTGTTCAAAGGCAATGTGGGACCAGGTT
GTTTAGCTATGGCAGATGCTGTTAAAAATGGCGGATTAATTTTGGCGCCAATTTTGACAC
TCTTTCTCGGTATTGTTTGTGTTCATGTCCAGCATATTTTATTGCAGTGTTCCAAAGAAA
TGCAAATTAAATATGATCTCGCAGAAAGCCCAGATTATGCAGAGACAGTAGAACTTGTCT
TTGCAAGCAGTGACAATCAAAAGTGTACAAAATATGCTAAAACAATGAAAGCTATTTGTA
ATGCATTTATTTGTATCACACAATTAGGCTTTTGTTGCATTTACTTTCTTTTCATTGGAA
CGAATTTAAAGCAAGTTTTAGATTTTTATGGTTTGCGTATTCCCTTTGGTTTGCTCGTAG
CTATAATTTTAATTCCGATATGGCTCAGCTCTCTTATCAGAAATTTAAAATATTTAGCTC
CATGTTCAGGAATTGCAAATGTTTGTATGATTACAGGTCTTGTGATCTCATATTACTACT
CATTACAAGATTTGCCTCCAATCACTGAAAGAAACTTTATGCCTCACGACATAAGAACTC
TTCCTTTATTTTTTGGAACA

>g13733.t2 Gene=g13733 Length=264
MELNGSSNVIVNENYRRSADKDFDQLHPAVVKLKAAAENGSSVKNRNTEPNNNERPHPKT
TYLETLMHLFKGNVGPGCLAMADAVKNGGLILAPILTLFLGIVCVHVQHILLQCSKEMQI
KYDLAESPDYAETVELVFASSDNQKCTKYAKTMKAICNAFICITQLGFCCIYFLFIGTNL
KQVLDFYGLRIPFGLLVAIILIPIWLSSLIRNLKYLAPCSGIANVCMITGLVISYYYSLQ
DLPPITERNFMPHDIRTLPLFFGT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13733.t2 MobiDBLite mobidb-lite consensus disorder prediction 37 57 -
9 g13733.t2 MobiDBLite mobidb-lite consensus disorder prediction 40 57 -
2 g13733.t2 PANTHER PTHR22950 AMINO ACID TRANSPORTER 45 264 1.0E-53
3 g13733.t2 PANTHER PTHR22950:SF150 FI17861P1 45 264 1.0E-53
1 g13733.t2 Pfam PF01490 Transmembrane amino acid transporter protein 59 241 8.7E-30
14 g13733.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 90 -
15 g13733.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 112 -
10 g13733.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 113 154 -
16 g13733.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 155 175 -
12 g13733.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 176 186 -
18 g13733.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 206 -
11 g13733.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 214 -
17 g13733.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 215 237 -
13 g13733.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 238 264 -
4 g13733.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
6 g13733.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
5 g13733.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -
7 g13733.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 216 238 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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