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_2 g7463 g7463.t11 TTS g7463.t11 23882765 23882765
chr_2 g7463 g7463.t11 isoform g7463.t11 23882906 23884935
chr_2 g7463 g7463.t11 exon g7463.t11.exon1 23882906 23883103
chr_2 g7463 g7463.t11 cds g7463.t11.CDS1 23882906 23883103
chr_2 g7463 g7463.t11 exon g7463.t11.exon2 23883163 23883436
chr_2 g7463 g7463.t11 cds g7463.t11.CDS2 23883163 23883436
chr_2 g7463 g7463.t11 exon g7463.t11.exon3 23883500 23883632
chr_2 g7463 g7463.t11 cds g7463.t11.CDS3 23883500 23883632
chr_2 g7463 g7463.t11 exon g7463.t11.exon4 23883708 23883902
chr_2 g7463 g7463.t11 cds g7463.t11.CDS4 23883708 23883902
chr_2 g7463 g7463.t11 exon g7463.t11.exon5 23883974 23884094
chr_2 g7463 g7463.t11 cds g7463.t11.CDS5 23883974 23884094
chr_2 g7463 g7463.t11 exon g7463.t11.exon6 23884154 23884511
chr_2 g7463 g7463.t11 cds g7463.t11.CDS6 23884154 23884453
chr_2 g7463 g7463.t11 exon g7463.t11.exon7 23884740 23884842
chr_2 g7463 g7463.t11 exon g7463.t11.exon8 23884910 23884935
chr_2 g7463 g7463.t11 TSS g7463.t11 23885222 23885222

Sequences

>g7463.t11 Gene=g7463 Length=1408
ATGGAATTAAATAATAATCCGATAAGAGATGAAGAGCTAGAAACAGCAATAGCCTTGGTT
CCAAAAAAAGAAGCTTCAAAAAAAGAAGAAGATTATGATCCACATGTAATACACATATTG
CACATTAATTAATTTCGATACGCTTGCACACTTGCTCAAAGGATGTTTGGGAACTGGCAT
CTTAGCAATGCATGAAGCATTCAGAAATGCTGGATGGCTCAATGGTTTAATAAGTATGGC
ACTTATTGGATTTGTTTGTACATATTGTTTTCAAATTTTAATCAAGGCTCAATATGCCTT
GTGTAAAAAACATCGTCGACCAATTTTATCTTATCCAGAGAGCATGAAGCTCGCTCTTGA
ACAAGGTCCTGCTGCACTTAAATGGATTGCACCATCAGCAGTTATCGTTACAGATGGTTT
TTTGATAATTTATCAGCTTGGTGTGTGCATTTGTTATATTGTTTTTGTCGCGGCAAATGT
TCAACTGATTGTTAAAGAATTTTATCAGTTTTATGATATTAAGTATATAATGTTATGGAT
ATTTATTCCTATGCTTGCAATCAATTGCATCAAGAATCTCAAAATCCTTGCGCCATTTTC
GACAGCGGCAAATGCCATAACATTTGTCGGTCTAGGTCTGGTGCTCTATTACGTTTTTGA
CGATTTACCTTCATTGTCGGAACGACCTGCATTTGGCCCTATTGAATCATATCCGCTCTA
TTTTGGAACTGTTTTGTTTGCACTTGAAGCCGTAGGAGTTTTTATAGCACTCGAGGCTAA
TATGGAAAAGCCAAAAAATTTCGTATCGAAATTTGGTGTTTTAAATTCCGGCATGACAAT
TGTAACTATATTATACGGTTTCGTGGGATTTTTTGGTTATTTAAAATATGGTGAAAAGTC
AAAAGACAGTATCACTTTAAGTTTACCAGCTGGACTAGTTCCAATTATCACTCAGGGATT
GTTTACGTTTGCAATTTTCATATCTTATGCATTGCAATGTTACGTACCAATATCAATTAT
TTGGGAGAATTATTGCAGCGATGAAATGAAGAAATCAAATCATAGCGATAAATACTTATT
GATATTACGTCTTCTTACTACGATTTTTACATTTATAATAGCTGCTGCTGTTCCGCACTT
GGGTCTTTTCATTTCACTTTTTGGCGCTTTCTGTCTGTCAATTTTAGGATTAGGCTTTCC
AGCTATTATGGAAATTTGTGTTTTGTGGCCAGACAAGTTTGGCAAACTCAATTGGCATTT
ATGGAAGGACATTGCTTTAGTTATTTTTGCATTTGCTGGCTTAACGAGTGGAACATTTGC
ATCAATGAAAGATATAATTGCCACATTCTCAACAGATGCATCTGAAGTAGCAAAAACTTT
TACCAATGCTACAATTGAGCAATCTTAG

>g7463.t11 Gene=g7463 Length=406
MHEAFRNAGWLNGLISMALIGFVCTYCFQILIKAQYALCKKHRRPILSYPESMKLALEQG
PAALKWIAPSAVIVTDGFLIIYQLGVCICYIVFVAANVQLIVKEFYQFYDIKYIMLWIFI
PMLAINCIKNLKILAPFSTAANAITFVGLGLVLYYVFDDLPSLSERPAFGPIESYPLYFG
TVLFALEAVGVFIALEANMEKPKNFVSKFGVLNSGMTIVTILYGFVGFFGYLKYGEKSKD
SITLSLPAGLVPIITQGLFTFAIFISYALQCYVPISIIWENYCSDEMKKSNHSDKYLLIL
RLLTTIFTFIIAAAVPHLGLFISLFGAFCLSILGLGFPAIMEICVLWPDKFGKLNWHLWK
DIALVIFAFAGLTSGTFASMKDIIATFSTDASEVAKTFTNATIEQS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g7463.t11 PANTHER PTHR22950:SF340 GLUTAMATE TRANSPORTER POLYPHEMUS-RELATED 1 387 1.1E-134
3 g7463.t11 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 387 1.1E-134
1 g7463.t11 Pfam PF01490 Transmembrane amino acid transporter protein 4 377 1.2E-51
24 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 13 -
30 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 14 34 -
17 g7463.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 78 -
29 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 102 -
20 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 103 107 -
27 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 108 128 -
16 g7463.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 129 139 -
31 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 157 -
21 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 176 -
25 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 177 197 -
15 g7463.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 198 208 -
28 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 209 231 -
19 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 232 250 -
33 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 251 275 -
14 g7463.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 276 295 -
32 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 296 315 -
23 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 316 320 -
34 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 321 346 -
18 g7463.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 347 357 -
26 g7463.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 358 378 -
22 g7463.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 379 406 -
13 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
7 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 101 -
11 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 111 128 -
4 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 133 155 -
9 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 175 197 -
5 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 210 232 -
10 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 247 269 -
12 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 297 319 -
6 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 324 346 -
8 g7463.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 358 380 -

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