Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Proton-coupled amino acid transporter-like protein CG1139.

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 g10938 g10938.t3 TTS g10938.t3 12868280 12868280
chr_1 g10938 g10938.t3 isoform g10938.t3 12868552 12869864
chr_1 g10938 g10938.t3 exon g10938.t3.exon1 12868552 12869012
chr_1 g10938 g10938.t3 cds g10938.t3.CDS1 12868552 12869012
chr_1 g10938 g10938.t3 exon g10938.t3.exon2 12869066 12869377
chr_1 g10938 g10938.t3 cds g10938.t3.CDS2 12869066 12869377
chr_1 g10938 g10938.t3 exon g10938.t3.exon3 12869443 12869864
chr_1 g10938 g10938.t3 cds g10938.t3.CDS3 12869443 12869851
chr_1 g10938 g10938.t3 TSS g10938.t3 12870154 12870154

Sequences

>g10938.t3 Gene=g10938 Length=1195
TGGTTGCTTTGGTATGGCTGATGCTATAAAAAATGCAGGAATAATTCTCGGACCAATTGC
AACAATTATAATTGCAATAATTTGTGTCGAGTGCATGCGAATGTTGCTTGTGGCTGCTGA
ATATATTATGATAGAAAATCAACTCAATTCAAGACCAGATTACTCACATGTCGTTGAATT
AAGCTTTTCAAAAAGCAAACATGAACGCTGGAGAAAATATTCACGATTAATGAGATTAAT
TTGCAACATTTCACTTTGTCTCACACAATTTGGCTTCTGTTGCGTTTATATTTTGTTTGT
CACAAAAAGCAGTAAAATTGTTCTTGATTATTATGGCATTATTTATGATTTAAAAATAAT
TATGGCAATCGTTCTCATACCAATTTTAATGTCTGCTTTAGTTCGTCAATTAAAAAATAT
TGCAATATTCTCAGGGATAGCAAATATTTGCATGATTATAGGAGCAGCAATGACTCTTAT
CTATTGCATAGATCTGCCACCATTGAATGAACGTGCATATATTAAACTCGACACTTTACC
TCTTTATTTTGGAACAGCTTTATTCGCATTTGAGGGAATTTCACTAGTTTTACCACTGCA
AAATTCAATGAAGAAACCTGAAAATTTTTCAAAATTTCCATTTGGTGTATTGCATATAGG
AATGTCTTTTGTGAGCATAATTTACACTGTTCTTGGCACAATGGGATATTGGAAATTTGG
AGAACAAACTGAAGGATCGCTGACATTAAATCTTCCAACTGATCAAATTTTGGCTCAAAT
CATAATTACTACTGTTTCACTTGGTGTTTTACTGACTTATGCCATTCAATTTTTTGTTGG
AATTCATATAATGTTGCCACCAATTCTTCGAAATTCAAAGACTGCAGCAAAATTTCCAAT
TTTAACTGAGTTAATTTTTAGAACGTTGATGGTTTTTGTGACTTTTATAATTGCCATGCT
TGTGCCTAATTTAAGTTTACTATTGAGTTTGATAGGCTCAGTTTGTTGTGTGATTCTAGC
ATTCATATTTCCATCAATCGTTGAACTCATGACAAGTTATGACAAAGGAAAAATTGGAGT
TTTTTGTTGGATCAAGAATATTGTTATTTTAATACTTGCTTTATGTGGATTTATATTAGG
TGGCGGACTCGCATTGAAAGGAATTTATGATGAATTTATTGCGACACATTTATAA

>g10938.t3 Gene=g10938 Length=393
MADAIKNAGIILGPIATIIIAIICVECMRMLLVAAEYIMIENQLNSRPDYSHVVELSFSK
SKHERWRKYSRLMRLICNISLCLTQFGFCCVYILFVTKSSKIVLDYYGIIYDLKIIMAIV
LIPILMSALVRQLKNIAIFSGIANICMIIGAAMTLIYCIDLPPLNERAYIKLDTLPLYFG
TALFAFEGISLVLPLQNSMKKPENFSKFPFGVLHIGMSFVSIIYTVLGTMGYWKFGEQTE
GSLTLNLPTDQILAQIIITTVSLGVLLTYAIQFFVGIHIMLPPILRNSKTAAKFPILTEL
IFRTLMVFVTFIIAMLVPNLSLLLSLIGSVCCVILAFIFPSIVELMTSYDKGKIGVFCWI
KNIVILILALCGFILGGGLALKGIYDEFIATHL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10938.t3 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 388 8.5E-88
3 g10938.t3 PANTHER PTHR22950:SF150 FI17861P1 1 388 8.5E-88
1 g10938.t3 Pfam PF01490 Transmembrane amino acid transporter protein 2 375 8.0E-59
19 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
30 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 38 -
17 g10938.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 39 74 -
34 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 95 -
24 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
28 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
15 g10938.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 130 135 -
27 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 157 -
22 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 176 -
25 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 177 196 -
18 g10938.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 197 207 -
26 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 208 232 -
21 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 233 251 -
31 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 252 279 -
14 g10938.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 280 299 -
32 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 300 317 -
23 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 318 322 -
33 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 323 343 -
16 g10938.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 344 362 -
29 g10938.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 363 385 -
20 g10938.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 386 393 -
13 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
10 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
9 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 108 130 -
5 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 137 159 -
4 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 174 193 -
8 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 210 232 -
7 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 252 274 -
11 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 295 317 -
12 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 321 343 -
6 g10938.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 363 385 -

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