Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cystine/glutamate transporter.

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 g7682 g7682.t3 TTS g7682.t3 25237172 25237172
chr_2 g7682 g7682.t3 isoform g7682.t3 25237395 25238121
chr_2 g7682 g7682.t3 exon g7682.t3.exon1 25237395 25237662
chr_2 g7682 g7682.t3 cds g7682.t3.CDS1 25237395 25237662
chr_2 g7682 g7682.t3 exon g7682.t3.exon2 25237716 25238041
chr_2 g7682 g7682.t3 cds g7682.t3.CDS2 25237716 25237822
chr_2 g7682 g7682.t3 exon g7682.t3.exon3 25238110 25238121
chr_2 g7682 g7682.t3 TSS g7682.t3 NA NA

Sequences

>g7682.t3 Gene=g7682 Length=606
GCTGTGGCAGTCACATTTGGAAATAAAATATTTGGCTCACTCGCATGGCTGATTCCAATA
TTTGTTGCTTTATCAACATTTGGTGGAGTGAATGGTGTGATTTTTACAAGTGCACGACTC
TTCGCCACTGGTGCCAATGAAGGTCATCTTCCATCATTTTTTGCCCTTTTCCATGTCACC
AAACAGACGCCAATTCCATCACTCATCTTTTCTTGTCTCGTCTCACTTATTATGATAATG
TTTGGAAATGCATTCGAGTTAGTCAACTATTTCAGTCAAGCACTTTGGTTATCAATTGCT
GCATGCGTTGGCGGACTTATTTGGATGCGAAAAACAAAACCAGACGCGCCAAGACCAATT
AAAGTCAACATAATCATTCCATGGATTTTTCTTATCATTTGCCTTGGTCTTGTTCTAACT
CCATCATTCACTGAACCTATGAATTTGGCTATAAATATTCTAATTACACTCAGTGGTGTT
CCATTTTATTTCTTATGTGTCAAATGGAAAAATAAACCAGCTGCATATAAGAAAGTCTCA
AAGAGTGTCGAGAAATTTTGCCAAATTTTATTCTCATCAGTATTCATTGACGAAGAATCT
CATTAG

>g7682.t3 Gene=g7682 Length=124
MIMFGNAFELVNYFSQALWLSIAACVGGLIWMRKTKPDAPRPIKVNIIIPWIFLIICLGL
VLTPSFTEPMNLAINILITLSGVPFYFLCVKWKNKPAAYKKVSKSVEKFCQILFSSVFID
EESH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g7682.t3 PANTHER PTHR11785:SF527 AMINO ACID TRANSPORTER PROTEIN JHI-21 1 121 2.6E-38
2 g7682.t3 PANTHER PTHR11785 AMINO ACID TRANSPORTER 1 121 2.6E-38
9 g7682.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 12 -
11 g7682.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 13 31 -
6 g7682.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 32 42 -
12 g7682.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 66 -
8 g7682.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 67 71 -
10 g7682.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 72 90 -
7 g7682.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 91 124 -
5 g7682.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
4 g7682.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
3 g7682.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 72 90 -

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