Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t5 TTS g10938.t5 12868280 12868280
chr_1 g10938 g10938.t5 isoform g10938.t5 12868552 12870150
chr_1 g10938 g10938.t5 exon g10938.t5.exon1 12868552 12868586
chr_1 g10938 g10938.t5 cds g10938.t5.CDS1 12868554 12868586
chr_1 g10938 g10938.t5 exon g10938.t5.exon2 12868645 12869012
chr_1 g10938 g10938.t5 cds g10938.t5.CDS2 12868645 12869012
chr_1 g10938 g10938.t5 exon g10938.t5.exon3 12869066 12869377
chr_1 g10938 g10938.t5 cds g10938.t5.CDS3 12869066 12869377
chr_1 g10938 g10938.t5 exon g10938.t5.exon4 12869443 12869868
chr_1 g10938 g10938.t5 cds g10938.t5.CDS4 12869443 12869868
chr_1 g10938 g10938.t5 exon g10938.t5.exon5 12869925 12870150
chr_1 g10938 g10938.t5 cds g10938.t5.CDS5 12869925 12870051
chr_1 g10938 g10938.t5 TSS g10938.t5 12870154 12870154

Sequences

>g10938.t5 Gene=g10938 Length=1367
TTGACTGCAAAATAGAAAAACAAACTTTTCGTAATTCTGCAAAATTCACAAAACTTTGGC
TTTATAAATAAATTTAAGATGATTGTCGAAAATCACGAAATGTCAAGGCAAGAAAGTACT
AAGAGTAAGAAGTCAATTTCTTTTAAATCAGATGACACAACTTATGAGAGACAAAAGCCA
ATTTCTTATTGGGAAGCACTTGCTAATTTGTTTAAAGCGAATGTCGGTACTGGTTGCTTT
GGTATGGCTGATGCTATAAAAAATGCAGGAATAATTCTCGGACCAATTGCAACAATTATA
ATTGCAATAATTTGTGTCGAGTGCATGCGAATGTTGCTTGTGGCTGCTGAATATATTATG
ATAGAAAATCAACTCAATTCAAGACCAGATTACTCACATGTCGTTGAATTAAGCTTTTCA
AAAAGCAAACATGAACGCTGGAGAAAATATTCACGATTAATGAGATTAATTTGCAACATT
TCACTTTGTCTCACACAATTTGGCTTCTGTTGCGTTTATATTTTGTTTGTCACAAAAAGC
AGTAAAATTGTTCTTGATTATTATGGCATTATTTATGATTTAAAAATAATTATGGCAATC
GTTCTCATACCAATTTTAATGTCTGCTTTAGTTCGTCAATTAAAAAATATTGCAATATTC
TCAGGGATAGCAAATATTTGCATGATTATAGGAGCAGCAATGACTCTTATCTATTGCATA
GATCTGCCACCATTGAATGAACGTGCATATATTAAACTCGACACTTTACCTCTTTATTTT
GGAACAGCTTTATTCGCATTTGAGGGAATTTCACTAGTTTTACCACTGCAAAATTCAATG
AAGAAACCTGAAAATTTTTCAAAATTTCCATTTGGTGTATTGCATATAGGAATGTCTTTT
GTGAGCATAATTTACACTGTTCTTGGCACAATGGGATATTGGAAATTTGGAGAACAAACT
GAAGGATCGCTGACATTAAATCTTCCAACTGATCAAATTTTGGCTCAAATCATAATTACT
ACTGTTTCACTTGGTGTTTTACTGACTTATGCCATTCAATTTTTTGTTGGAATTCATATA
ATGTTGCCACCAATTCTTCGAAATTCAAAGACTGCAGCAAAATTTCCAATTTTAACTGAG
TTAATTTTTAGAACGTTGATGGTTTTTGTGACTTTTATAATTGCCATGCTTGTGCCTAAT
TTAAGTTTACTATTGAGTTTGATAGGCTCAGTTTGTTGTGTGATTCTAGCATTCATATTT
CCATCAATCGTTGAACTCATGACAAGTTATGACAAAGGAAAAATTGGAGTTTTTTGTTGG
ATCAAGAATATTGAATTTATGATGAATTTATTGCGACACATTTATAA

>g10938.t5 Gene=g10938 Length=422
MSRQESTKSKKSISFKSDDTTYERQKPISYWEALANLFKANVGTGCFGMADAIKNAGIIL
GPIATIIIAIICVECMRMLLVAAEYIMIENQLNSRPDYSHVVELSFSKSKHERWRKYSRL
MRLICNISLCLTQFGFCCVYILFVTKSSKIVLDYYGIIYDLKIIMAIVLIPILMSALVRQ
LKNIAIFSGIANICMIIGAAMTLIYCIDLPPLNERAYIKLDTLPLYFGTALFAFEGISLV
LPLQNSMKKPENFSKFPFGVLHIGMSFVSIIYTVLGTMGYWKFGEQTEGSLTLNLPTDQI
LAQIIITTVSLGVLLTYAIQFFVGIHIMLPPILRNSKTAAKFPILTELIFRTLMVFVTFI
IAMLVPNLSLLLSLIGSVCCVILAFIFPSIVELMTSYDKGKIGVFCWIKNIEFMMNLLRH
IY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10938.t5 PANTHER PTHR22950 AMINO ACID TRANSPORTER 13 414 7.1E-98
3 g10938.t5 PANTHER PTHR22950:SF150 FI17861P1 13 414 7.1E-98
1 g10938.t5 Pfam PF01490 Transmembrane amino acid transporter protein 27 399 8.4E-66
22 g10938.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 57 -
28 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -
13 g10938.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 81 122 -
24 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 123 143 -
20 g10938.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 144 154 -
31 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
14 g10938.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 178 183 -
26 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 184 205 -
18 g10938.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 206 224 -
23 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 225 244 -
16 g10938.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 245 255 -
29 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 256 280 -
21 g10938.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 281 299 -
27 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 300 327 -
15 g10938.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 328 347 -
25 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 348 365 -
19 g10938.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 366 370 -
30 g10938.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 371 391 -
17 g10938.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 392 422 -
10 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
6 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 123 145 -
4 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 156 178 -
11 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 185 207 -
9 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 222 241 -
8 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 258 280 -
7 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 300 322 -
5 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 343 365 -
12 g10938.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 369 391 -

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

Pathway

  • This transcript belongs to the following pathways

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