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 g10938 g10938.t6 isoform g10938.t6 12869447 12870072
chr_1 g10938 g10938.t6 exon g10938.t6.exon1 12869447 12869868
chr_1 g10938 g10938.t6 cds g10938.t6.CDS1 12869447 12869868
chr_1 g10938 g10938.t6 exon g10938.t6.exon2 12869925 12870072
chr_1 g10938 g10938.t6 cds g10938.t6.CDS2 12869925 12870072
chr_1 g10938 g10938.t6 TSS g10938.t6 12870154 12870154
chr_1 g10938 g10938.t6 TTS g10938.t6 NA NA

Sequences

>g10938.t6 Gene=g10938 Length=570
ATGATTGTCGAAAATCACGAAATGTCAAGGCAAGAAAGTACTAAGAGTAAGAAGTCAATT
TCTTTTAAATCAGATGACACAACTTATGAGAGACAAAAGCCAATTTCTTATTGGGAAGCA
CTTGCTAATTTGTTTAAAGCGAATGTCGGTACTGGTTGCTTTGGTATGGCTGATGCTATA
AAAAATGCAGGAATAATTCTCGGACCAATTGCAACAATTATAATTGCAATAATTTGTGTC
GAGTGCATGCGAATGTTGCTTGTGGCTGCTGAATATATTATGATAGAAAATCAACTCAAT
TCAAGACCAGATTACTCACATGTCGTTGAATTAAGCTTTTCAAAAAGCAAACATGAACGC
TGGAGAAAATATTCACGATTAATGAGATTAATTTGCAACATTTCACTTTGTCTCACACAA
TTTGGCTTCTGTTGCGTTTATATTTTGTTTGTCACAAAAAGCAGTAAAATTGTTCTTGAT
TATTATGGCATTATTTATGATTTAAAAATAATTATGGCAATCGTTCTCATACCAATTTTA
ATGTCTGCTTTAGTTCGTCAATTAAAAAAT

>g10938.t6 Gene=g10938 Length=190
MIVENHEMSRQESTKSKKSISFKSDDTTYERQKPISYWEALANLFKANVGTGCFGMADAI
KNAGIILGPIATIIIAIICVECMRMLLVAAEYIMIENQLNSRPDYSHVVELSFSKSKHER
WRKYSRLMRLICNISLCLTQFGFCCVYILFVTKSSKIVLDYYGIIYDLKIIMAIVLIPIL
MSALVRQLKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g10938.t6 Coils Coil Coil 185 190 -
7 g10938.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 23 -
2 g10938.t6 PANTHER PTHR22950:SF340 GLUTAMATE TRANSPORTER POLYPHEMUS-RELATED 8 189 8.9E-32
3 g10938.t6 PANTHER PTHR22950 AMINO ACID TRANSPORTER 8 189 8.9E-32
1 g10938.t6 Pfam PF01490 Transmembrane amino acid transporter protein 34 189 6.7E-23
12 g10938.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 64 -
13 g10938.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 65 87 -
10 g10938.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 88 129 -
15 g10938.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 152 -
11 g10938.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 153 163 -
14 g10938.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 164 185 -
9 g10938.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 186 190 -
4 g10938.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
5 g10938.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 130 152 -
6 g10938.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 162 184 -

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