Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t2 isoform g10937.t2 12865012 12866193
chr_1 g10937 g10937.t2 exon g10937.t2.exon1 12865012 12866193
chr_1 g10937 g10937.t2 cds g10937.t2.CDS1 12865743 12866138
chr_1 g10937 g10937.t2 TSS g10937.t2 12866761 12866761
chr_1 g10937 g10937.t2 TTS g10937.t2 NA NA

Sequences

>g10937.t2 Gene=g10937 Length=1182
ATCAATAACTCTCAATCTTCCAACTAATGAAATTCTTGCACAAGTTATAATTGTCATGGC
ATCCTTTGGTGTTTTATTTTCATATGCACTTCAATTTTTTGTTGGAATTCATATAATTCT
GCCACCAATTTTTCGAAATTCAAAGACTGCAGCAAAATTTCCAATTTATACTGAACAAAT
TTTTAGAACATTGATGGTTTTCGTGACTTTTATAATTGCCATGCTCGTTCCTGATTTAAG
TTTATTATTAAGTTTGATAGGCTCAGTTTGTTGTGTGATATTGGCGTTTGTATTTCCATC
AATTGTTGAACTTATGACAAGATATGATGAAGGAAAAATTGGAACATTTTATTGGATTAA
AAATATAATTATTTTGACCATTGCCTTATGTGGATTTATATTAGGTGGCGGCCTCGCATT
GATTAATATTTATGAAGAATTCATAGCATAAGTTTTTAAAAACTCTGAAGTTGAAGTTGA
AGTATTGAAAGAAGAATTTTTTTCCATCATCATTGTACTTAAATGTTGAAAAATAATTGA
TACTTAGTTTTTTAAAATGTCAAAAAATATTTAGTTGTTTGCAAGAAATTTGTTTCAATA
TTTTATAAATTTTTTTAAAAATCATTTTTCATGTCACGCACAACATTTACACAAAAAAAT
ACGCGAAATTGCGTAAGTGTTCGTCCTCCTGATTTCATAACTGAAAAAATTAAAATTTTT
ATACGTTATTTTTTATTTTAAATTTAAAATATATTTTAAGATTATCGTGACAGTTATAGA
AAATTAAGAGATGACAAATGAGCTTAATCCATCATCTACAAATAATAAAAGAAACAAATA
TTACCATTGATAGTGCACGAAGAAATTTTTGAAAAATATATAATTGTCAGTTTCGTATCT
TTCGTTTTCTTTTTTTTCTATTGCAATAGTTTGTGTTGAATGCATGATAATGTTGCCTGA
AATGAAATTGGATTTGTGAAAAAATTGAATTTATTTTATTTTAATAAACATTTTATTACA
AAAAACTTAATGTTAGTAAAAATATGATAACAATAAGTAAAATTTAATTTTTGAGCTCAT
ATGGACCATTGAATTTCAATTTATATATCATCTATAAAAATAAATTTAAAAAACTTCAAT
AGTATTTTGTAGAATTAAAAGGTTTAAAAATTCATATTTACT

>g10937.t2 Gene=g10937 Length=131
MASFGVLFSYALQFFVGIHIILPPIFRNSKTAAKFPIYTEQIFRTLMVFVTFIIAMLVPD
LSLLLSLIGSVCCVILAFVFPSIVELMTRYDEGKIGTFYWIKNIIILTIALCGFILGGGL
ALINIYEEFIA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10937.t2 PANTHER PTHR22950 AMINO ACID TRANSPORTER 1 129 2.4E-20
3 g10937.t2 PANTHER PTHR22950:SF150 FI17861P1 1 129 2.4E-20
1 g10937.t2 Pfam PF01490 Transmembrane amino acid transporter protein 4 116 2.3E-13
11 g10937.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
14 g10937.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 26 -
8 g10937.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 27 37 -
15 g10937.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 38 58 -
10 g10937.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 59 63 -
13 g10937.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 84 -
9 g10937.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 85 103 -
16 g10937.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 104 126 -
12 g10937.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 127 131 -
6 g10937.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
5 g10937.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 41 58 -
4 g10937.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 84 -
7 g10937.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 104 126 -

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