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 g10937 g10937.t5 TTS g10937.t5 12865116 12865116
chr_1 g10937 g10937.t5 isoform g10937.t5 12865200 12867257
chr_1 g10937 g10937.t5 exon g10937.t5.exon1 12865200 12866194
chr_1 g10937 g10937.t5 cds g10937.t5.CDS1 12865743 12866194
chr_1 g10937 g10937.t5 exon g10937.t5.exon2 12866249 12866563
chr_1 g10937 g10937.t5 cds g10937.t5.CDS2 12866249 12866563
chr_1 g10937 g10937.t5 exon g10937.t5.exon3 12866621 12867257
chr_1 g10937 g10937.t5 cds g10937.t5.CDS3 12866621 12867029
chr_1 g10937 g10937.t5 TSS g10937.t5 12867360 12867360

Sequences

>g10937.t5 Gene=g10937 Length=1947
ATGGTGGAAAATCATGAAATAGAATTATCATCAGCAAATAAAAATAAAGAAAATAATAAT
TCAGTGAAACAACCTCATTATGAAAGTCACAAAAAACAATTGCCAATTTCTTATCTGGAA
ACGCTCGCGAATTTATTCAAAGCAAATGTCGGTAAGTGAATTTCTTAGGAATTTTTTTAA
AAATACGCAAATACATTGAAAAAAATTTCAGGCACTGGTTGCTTCGGTATGGCTGATGCT
ATTAAAAATGCAGGAATAATTCTCGGACCAATTGCAACAATTTTTATCGCAATAATTTGT
GTCGAGTGCATGAGAATGTTGCTTAATGCAGCGGACTATATCACAGAAAAAAATCAACTA
ATTACTCGACCAGATTACTCACATGTTGTTGAATTGAGCTTCCTAATTAGTAAACACGAA
CGATGGAGAAAATATTCGAAATTCATGCGAATGCTGTGCAATGTTTCTCTTTGTCTCACA
CAATTTGGTTTTTGCTGTGTGTATTTTTTATTTGTATCGAAAAGCACCAAAACAATTCTT
GATTACTATGGATTTATTTTTGAACTCGAGATTGTTATGCTCTTCGTTTTTATTCCAATT
TTATTGTCCGCTTTAGTTAGGCAGTTAAAATATTTAGCAATTTTCTCTGCAGTTGCAAAT
GTATGCATGATCACAGGTGTTTCAATGACACTTTATTACTGTTTTATTGATTTACCACCA
ATAACTGAACACAATTTTGTAAGATTTGATACATTGCCACTCTATTTTGGGACAGCATTA
TTTGCATTTGAAGGAATCACACTCGTTTTACCACTTCATAATGTGATGAAAAAACCTGAA
AATTTTTCAAAATTTCCATTTGGTGTGTTGCATGTTGGAATGTCACTTGTGAGTTTCATT
TATGTCCTACTTGGATTTATGGGATATTGGAAATTTGGAGAACAAACTGAAGGATCAATA
ACTCTCAATCTTCCAACTAATGAAATTCTTGCACAAGTTATAATTGTCATGGCATCCTTT
GGTGTTTTATTTTCATATGCACTTCAATTTTTTGTTGGAATTCATATAATTCTGCCACCA
ATTTTTCGAAATTCAAAGACTGCAGCAAAATTTCCAATTTATACTGAACAAATTTTTAGA
ACATTGATGGTTTTCGTGACTTTTATAATTGCCATGCTCGTTCCTGATTTAAGTTTATTA
TTAAGTTTGATAGGCTCAGTTTGTTGTGTGATATTGGCGTTTGTATTTCCATCAATTGTT
GAACTTATGACAAGATATGATGAAGGAAAAATTGGAACATTTTATTGGATTAAAAATATA
ATTATTTTGACCATTGCCTTATGTGGATTTATATTAGGTGGCGGCCTCGCATTGATTAAT
ATTTATGAAGAATTCATAGCATAAGTTTTTAAAAACTCTGAAGTTGAAGTTGAAGTATTG
AAAGAAGAATTTTTTTCCATCATCATTGTACTTAAATGTTGAAAAATAATTGATACTTAG
TTTTTTAAAATGTCAAAAAATATTTAGTTGTTTGCAAGAAATTTGTTTCAATATTTTATA
AATTTTTTTAAAAATCATTTTTCATGTCACGCACAACATTTACACAAAAAAATACGCGAA
ATTGCGTAAGTGTTCGTCCTCCTGATTTCATAACTGAAAAAATTAAAATTTTTATACGTT
ATTTTTTATTTTAAATTTAAAATATATTTTAAGATTATCGTGACAGTTATAGAAAATTAA
GAGATGACAAATGAGCTTAATCCATCATCTACAAATAATAAAAGAAACAAATATTACCAT
TGATAGTGCACGAAGAAATTTTTGAAAAATATATAATTGTCAGTTTCGTATCTTTCGTTT
TCTTTTTTTTCTATTGCAATAGTTTGTGTTGAATGCATGATAATGTTGCCTGAAATGAAA
TTGGATTTGTGAAAAAATTGAATTTAT

>g10937.t5 Gene=g10937 Length=391
MADAIKNAGIILGPIATIFIAIICVECMRMLLNAADYITEKNQLITRPDYSHVVELSFLI
SKHERWRKYSKFMRMLCNVSLCLTQFGFCCVYFLFVSKSTKTILDYYGFIFELEIVMLFV
FIPILLSALVRQLKYLAIFSAVANVCMITGVSMTLYYCFIDLPPITEHNFVRFDTLPLYF
GTALFAFEGITLVLPLHNVMKKPENFSKFPFGVLHVGMSLVSFIYVLLGFMGYWKFGEQT
EGSITLNLPTNEILAQVIIVMASFGVLFSYALQFFVGIHIILPPIFRNSKTAAKFPIYTE
QIFRTLMVFVTFIIAMLVPDLSLLLSLIGSVCCVILAFVFPSIVELMTRYDEGKIGTFYW
IKNIIILTIALCGFILGGGLALINIYEEFIA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10937.t5 PANTHER PTHR22950:SF340 GLUTAMATE TRANSPORTER POLYPHEMUS-RELATED 1 389 2.3E-92
3 g10937.t5 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 389 2.3E-92
1 g10937.t5 Pfam PF01490 Transmembrane amino acid transporter protein 2 376 2.3E-59
20 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
31 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
16 g10937.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 74 -
34 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 95 -
24 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
29 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
14 g10937.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 130 135 -
27 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 157 -
22 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 176 -
26 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 177 197 -
15 g10937.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 198 208 -
32 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 209 233 -
19 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 234 252 -
25 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 253 282 -
18 g10937.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 283 301 -
30 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 302 318 -
23 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 319 323 -
28 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 324 344 -
17 g10937.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 345 363 -
33 g10937.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 364 386 -
21 g10937.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 387 391 -
12 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
8 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
6 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
4 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 136 158 -
13 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 178 200 -
7 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 212 234 -
10 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 254 276 -
5 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 296 318 -
9 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 322 344 -
11 g10937.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 364 386 -

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.

Raw TPM values