Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable vesicular glutamate transporter eat-4.

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 g6716 g6716.t2 isoform g6716.t2 18279758 18280796
chr_2 g6716 g6716.t2 exon g6716.t2.exon1 18279758 18280419
chr_2 g6716 g6716.t2 cds g6716.t2.CDS1 18280110 18280419
chr_2 g6716 g6716.t2 exon g6716.t2.exon2 18280488 18280796
chr_2 g6716 g6716.t2 cds g6716.t2.CDS2 18280488 18280594
chr_2 g6716 g6716.t2 TSS g6716.t2 NA NA
chr_2 g6716 g6716.t2 TTS g6716.t2 NA NA

Sequences

>g6716.t2 Gene=g6716 Length=971
AGCAAGTTACGGCATTTCTGGAATTTATGTGGGAACTGTTATTGCAAATCTCTTATCAGG
ATGGCTTGGGGACACATTTGGGTGGGAGAGTATATTTTATGTGTTTGGATTTGCTACAAT
TATCTGGAATGTAGTTTGGTTTGCAGTTGTACGAGAATCTCCTGAAAAAGATCCATGGAT
TACAACTAGTGAAAAACGTTTTATAAAAGAGAGTTTGAAAAATCAAAAGGGACAAAGAAA
TATAATTAAACCGCCTTGGAAAGCTATATTCACTTCCGGTCCATTATATGTAATAGCTGT
GGCTCATTTTTCATATACTTACGGTTATTATACTTTATTAACACAACTTCCTATGTATAT
GAGAGATATACTTGGTTTAGATCTTACAAAGAGTGGTATAGTGAGTGGAGTACCTTATAT
TTTACAAACTGTTTTGATATTTATTTCTGGATACTTTGCTGATTGGCTTTTGATGAAAAA
ATATTTTACATTAACACAAGTTCGCAAATATTTCAACAATTCTGCTTTATTTTTTCAAAT
GGTATTTTTGCTCATAAGTGCTTTTGTTACAAATACTACAACAATCATTGTCTGCATTTC
GTTTTCCGTCGGATTGGGAAGTTTAGCAATGTCCGGATATTTGCCAAATACAATTGATAT
AGCCCCTCAGTTCGGAAGTATCCTTTTAGGAATAACTAATACATTTGCAACAGTTTCTGG
CTTAATTTCACCACCATTATCTGGATACATTGCTGTCACTCCAGTATAAAATTTTTCTTT
TTTTAATGAATTATTTTATAAATTCAAATATATTTTAGACTGCTGCCGAATATCAAATAA
TATTTTTCATAACATGTGGTGTATATATTTTAGGAATTATCGTTTATGGAATTTTTGCAA
CTGCTGAAGTACAACCTTGGGCTGTTGTTGATGCTGAAGATAATGAAAATATGAACGAAT
TAAAGAAATAA

>g6716.t2 Gene=g6716 Length=138
MYMRDILGLDLTKSGIVSGVPYILQTVLIFISGYFADWLLMKKYFTLTQVRKYFNNSALF
FQMVFLLISAFVTNTTTIIVCISFSVGLGSLAMSGYLPNTIDIAPQFGSILLGITNTFAT
VSGLISPPLSGYIAVTPV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g6716.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 1 136 6.6E-13
1 g6716.t2 PANTHER PTHR11662 SOLUTE CARRIER FAMILY 17 2 134 1.7E-31
10 g6716.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
13 g6716.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 41 -
8 g6716.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 42 52 -
15 g6716.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 71 -
9 g6716.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 72 76 -
12 g6716.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 98 -
7 g6716.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 99 109 -
14 g6716.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 110 135 -
11 g6716.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 136 138 -
5 g6716.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 2 134 6.67E-13
4 g6716.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 36 -
3 g6716.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 57 88 -
2 g6716.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 125 -

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