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 g10937 g10937.t11 TTS g10937.t11 12865629 12865629
chr_1 g10937 g10937.t11 isoform g10937.t11 12866313 12867257
chr_1 g10937 g10937.t11 exon g10937.t11.exon1 12866313 12866563
chr_1 g10937 g10937.t11 cds g10937.t11.CDS1 12866313 12866563
chr_1 g10937 g10937.t11 exon g10937.t11.exon2 12866621 12867046
chr_1 g10937 g10937.t11 cds g10937.t11.CDS2 12866621 12867046
chr_1 g10937 g10937.t11 exon g10937.t11.exon3 12867107 12867257
chr_1 g10937 g10937.t11 cds g10937.t11.CDS3 12867107 12867257
chr_1 g10937 g10937.t11 TSS g10937.t11 12867360 12867360

Sequences

>g10937.t11 Gene=g10937 Length=828
ATGGTGGAAAATCATGAAATAGAATTATCATCAGCAAATAAAAATAAAGAAAATAATAAT
TCAGTGAAACAACCTCATTATGAAAGTCACAAAAAACAATTGCCAATTTCTTATCTGGAA
ACGCTCGCGAATTTATTCAAAGCAAATGTCGGCACTGGTTGCTTCGGTATGGCTGATGCT
ATTAAAAATGCAGGAATAATTCTCGGACCAATTGCAACAATTTTTATCGCAATAATTTGT
GTCGAGTGCATGAGAATGTTGCTTAATGCAGCGGACTATATCACAGAAAAAAATCAACTA
ATTACTCGACCAGATTACTCACATGTTGTTGAATTGAGCTTCCTAATTAGTAAACACGAA
CGATGGAGAAAATATTCGAAATTCATGCGAATGCTGTGCAATGTTTCTCTTTGTCTCACA
CAATTTGGTTTTTGCTGTGTGTATTTTTTATTTGTATCGAAAAGCACCAAAACAATTCTT
GATTACTATGGATTTATTTTTGAACTCGAGATTGTTATGCTCTTCGTTTTTATTCCAATT
TTATTGTCCGCTTTAGTTAGGCAGTTAAAATATTTAGCAATTTTCTCTGCAGTTGCAAAT
GTATGCATGATCACAGGTGTTTCAATGACACTTTATTACTGTTTTATTGATTTACCACCA
ATAACTGAACACAATTTTGTAAGATTTGATACATTGCCACTCTATTTTGGGACAGCATTA
TTTGCATTTGAAGGAATCACACTCGTTTTACCACTTCATAATGTGATGAAAAAACCTGAA
AATTTTTCAAAATTTCCATTTGGTGTGTTGCATGTTGGAATGTCACTT

>g10937.t11 Gene=g10937 Length=276
MVENHEIELSSANKNKENNNSVKQPHYESHKKQLPISYLETLANLFKANVGTGCFGMADA
IKNAGIILGPIATIFIAIICVECMRMLLNAADYITEKNQLITRPDYSHVVELSFLISKHE
RWRKYSKFMRMLCNVSLCLTQFGFCCVYFLFVSKSTKTILDYYGFIFELEIVMLFVFIPI
LLSALVRQLKYLAIFSAVANVCMITGVSMTLYYCFIDLPPITEHNFVRFDTLPLYFGTAL
FAFEGITLVLPLHNVMKKPENFSKFPFGVLHVGMSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g10937.t11 MobiDBLite mobidb-lite consensus disorder prediction 1 29 -
2 g10937.t11 PANTHER PTHR22950 AMINO ACID TRANSPORTER 16 275 1.0E-58
3 g10937.t11 PANTHER PTHR22950:SF150 FI17861P1 16 275 1.0E-58
1 g10937.t11 Pfam PF01490 Transmembrane amino acid transporter protein 36 271 7.9E-36
14 g10937.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 65 -
16 g10937.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
12 g10937.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 89 130 -
19 g10937.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 131 151 -
13 g10937.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 152 162 -
20 g10937.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 163 185 -
11 g10937.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 186 191 -
17 g10937.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 192 213 -
15 g10937.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 214 232 -
18 g10937.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 233 252 -
10 g10937.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 253 276 -
5 g10937.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
4 g10937.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 131 153 -
8 g10937.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 163 185 -
7 g10937.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 192 214 -
6 g10937.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 234 256 -

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.

Raw TPM values