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_3 g3175 g3175.t2 isoform g3175.t2 23443904 23444849
chr_3 g3175 g3175.t2 exon g3175.t2.exon1 23443904 23444849
chr_3 g3175 g3175.t2 cds g3175.t2.CDS1 23444485 23444793
chr_3 g3175 g3175.t2 TSS g3175.t2 NA NA
chr_3 g3175 g3175.t2 TTS g3175.t2 NA NA

Sequences

>g3175.t2 Gene=g3175 Length=946
TCGGTGATGTTTATGTATTGATCACATATTCTAGCATCGTCGAAACATTCTTTATAATGA
TGAGTGTTTCTGGAGTTTTATATTTTCGTTGGAAACGACCCGATATGGCACGTCCTATAA
AAGTTAATATATCAGTTCCAATAATTTTTGTTGGAATTTGCATCTTTCTCATTATTGTGC
CAGTTTTTGATGCACCTTGGGAAGTTTTCATGGGTTGTTTCATTACTTTAACAGGCGTTC
CTATTTATTTGATCTGTATTGCGTGGAAACGTAAGCCTAAAAATTTTCAAAATGTCATTG
ATAAACTCACTATCAACATGCAAAAATTATTCATGAGTGCCAAAGAAGAGCAAGAGATCG
ATTAAAAATTGATTGAATATGACGAATATGAAACATTTGAATCTCAAAATTTATTTAATT
TTAGCATGATCTAAATTTTGTTTATAATTTGCCTACCTATCTGAATTTTGAAAAAAAAAA
CCAAAAAATATTTAGAATCTTTTTCCGTACTTAAGACTTGAATTAGAAAAAAATGACAAC
TAAATCTCACTAAAAAGTAAAAATTTCCCTCCGCTTTTAGCATATCAAAAATTGATTTTA
GTGATTAGTCAAAAGAAAAAGTAATACAGATTTGTTCTCTTATACTTAAGATTTAATTGA
TGCAAAAAATTTGAATGACATTATTGTATACTTTTCTCATTTATATTATTTTTGTAATCA
TACTTTTATTAAATCATCTGCATCATGATTTTTGTATTGAACTTTTTTATATCAAAATAT
GTAATCAATCAGCATGAAAAAATAAAGAGCAAAAAAGTAATTTTTCATTAACGAAATCTC
AAATGTAATGTATTTTTATTTAAAAATATATCCAATCATTTTATAAAATGATGAAATTAA
TCAAAAAAGTAGTTGAGATAATTATGTCTATTCATGTTATAAAATT

>g3175.t2 Gene=g3175 Length=102
MMSVSGVLYFRWKRPDMARPIKVNISVPIIFVGICIFLIIVPVFDAPWEVFMGCFITLTG
VPIYLICIAWKRKPKNFQNVIDKLTINMQKLFMSAKEEQEID

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g3175.t2 PANTHER PTHR11785:SF240 GH08870P 1 101 2.0E-37
2 g3175.t2 PANTHER PTHR11785 AMINO ACID TRANSPORTER 1 101 2.0E-37
6 g3175.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
9 g3175.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 44 -
7 g3175.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 45 49 -
8 g3175.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 70 -
5 g3175.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 71 102 -
4 g3175.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
3 g3175.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 48 70 -

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. There were no conditions that were differentially expressed