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 g10937 g10937.t9 TTS g10937.t9 12865629 12865629
chr_1 g10937 g10937.t9 isoform g10937.t9 12866248 12867257
chr_1 g10937 g10937.t9 exon g10937.t9.exon1 12866248 12866563
chr_1 g10937 g10937.t9 cds g10937.t9.CDS1 12866250 12866563
chr_1 g10937 g10937.t9 exon g10937.t9.exon2 12866621 12867257
chr_1 g10937 g10937.t9 cds g10937.t9.CDS2 12866621 12867029
chr_1 g10937 g10937.t9 TSS g10937.t9 12867360 12867360

Sequences

>g10937.t9 Gene=g10937 Length=953
ATGGTGGAAAATCATGAAATAGAATTATCATCAGCAAATAAAAATAAAGAAAATAATAAT
TCAGTGAAACAACCTCATTATGAAAGTCACAAAAAACAATTGCCAATTTCTTATCTGGAA
ACGCTCGCGAATTTATTCAAAGCAAATGTCGGTAAGTGAATTTCTTAGGAATTTTTTTAA
AAATACGCAAATACATTGAAAAAAATTTCAGGCACTGGTTGCTTCGGTATGGCTGATGCT
ATTAAAAATGCAGGAATAATTCTCGGACCAATTGCAACAATTTTTATCGCAATAATTTGT
GTCGAGTGCATGAGAATGTTGCTTAATGCAGCGGACTATATCACAGAAAAAAATCAACTA
ATTACTCGACCAGATTACTCACATGTTGTTGAATTGAGCTTCCTAATTAGTAAACACGAA
CGATGGAGAAAATATTCGAAATTCATGCGAATGCTGTGCAATGTTTCTCTTTGTCTCACA
CAATTTGGTTTTTGCTGTGTGTATTTTTTATTTGTATCGAAAAGCACCAAAACAATTCTT
GATTACTATGGATTTATTTTTGAACTCGAGATTGTTATGCTCTTCGTTTTTATTCCAATT
TTATTGTCCGCTTTAGTTAGGCAGTTAAAATATTTAGCAATTTTCTCTGCAGTTGCAAAT
GTATGCATGATCACAGGTGTTTCAATGACACTTTATTACTGTTTTATTGATTTACCACCA
ATAACTGAACACAATTTTGTAAGATTTGATACATTGCCACTCTATTTTGGGACAGCATTA
TTTGCATTTGAAGGAATCACACTCGTTTTACCACTTCATAATGTGATGAAAAAACCTGAA
AATTTTTCAAAATTTCCATTTGGTGTGTTGCATGTTGGAATGTCACTTGTGAGTTTCATT
TATGTCCTACTTGGATTTATGGGATATTGGAAATTTGGAGAACAAACTGAAGG

>g10937.t9 Gene=g10937 Length=241
MADAIKNAGIILGPIATIFIAIICVECMRMLLNAADYITEKNQLITRPDYSHVVELSFLI
SKHERWRKYSKFMRMLCNVSLCLTQFGFCCVYFLFVSKSTKTILDYYGFIFELEIVMLFV
FIPILLSALVRQLKYLAIFSAVANVCMITGVSMTLYYCFIDLPPITEHNFVRFDTLPLYF
GTALFAFEGITLVLPLHNVMKKPENFSKFPFGVLHVGMSLVSFIYVLLGFMGYWKFGEQT
E

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10937.t9 PANTHER PTHR22950:SF340 GLUTAMATE TRANSPORTER POLYPHEMUS-RELATED 1 240 4.0E-55
3 g10937.t9 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 240 4.0E-55
1 g10937.t9 Pfam PF01490 Transmembrane amino acid transporter protein 2 241 1.4E-37
13 g10937.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
19 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
12 g10937.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 74 -
21 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 95 -
15 g10937.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
20 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
10 g10937.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 130 135 -
18 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 157 -
14 g10937.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 176 -
17 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 177 197 -
11 g10937.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 198 208 -
22 g10937.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 209 234 -
16 g10937.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 235 241 -
9 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
4 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
6 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
5 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 136 158 -
8 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 178 200 -
7 g10937.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 212 234 -

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