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 g13336 g13336.t2 isoform g13336.t2 29366655 29368431
chr_1 g13336 g13336.t2 exon g13336.t2.exon1 29366655 29367171
chr_1 g13336 g13336.t2 cds g13336.t2.CDS1 29366655 29366996
chr_1 g13336 g13336.t2 exon g13336.t2.exon2 29368358 29368431
chr_1 g13336 g13336.t2 TSS g13336.t2 NA NA
chr_1 g13336 g13336.t2 TTS g13336.t2 NA NA

Sequences

>g13336.t2 Gene=g13336 Length=591
ATGGCTTTTGGTATGCTAGCTGGCGTTGATCCTATTGTTGGACTGTATATGGCATTCTTT
CCAACCTTAATTCATTGCATTTTTGGAACTTCAAAGCATATCAGTATGGGAACTTTTGCT
GTCATTTCAATTGCAACTTCAAAATTAACGACTAAATTTTCTGACTCAAATTATGAAATG
AGAAATTTAACAAACAATTCAACAGTAGATTCATTACCGCATTATCATTATAGCACAGCA
CAAATATCATCAGCTTTAACTCTCGTTTGTGGATTCTATCAACTTCTCATGTGCATTTTT
AAACTTGGATTTCTTCATCGCTTTTTCCTGAATCACTTTTAAATGGATTTTCAACTGCTG
CTGCTTGTCACATTTTGGTTTCTCAATTAAAAGAAATTTTGGGACTAAATCTTCCACAAC
GTCAAGGAGCTTTTAAATTTTTTTTTATAATTCAAGAATGTTTTTGAAAATTTTTCAAAC
ACAAATCATTCAACATTTTTGTTTCAATCACTTGCATAATTCTACCAAAAAGATCAACTC
TGTATTTCCTTATTTCTCTCTCACATTCTATTCGAAAATGAAAATGAAAAC

>g13336.t2 Gene=g13336 Length=113
MAFGMLAGVDPIVGLYMAFFPTLIHCIFGTSKHISMGTFAVISIATSKLTTKFSDSNYEM
RNLTNNSTVDSLPHYHYSTAQISSALTLVCGFYQLLMCIFKLGFLHRFFLNHF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g13336.t2 PANTHER PTHR11814:SF180 ANION TRANSPORTER SULP-8A 1 109 4.8E-23
3 g13336.t2 PANTHER PTHR11814 SULFATE TRANSPORTER 1 109 4.8E-23
1 g13336.t2 Pfam PF00916 Sulfate permease family 1 109 7.2E-21
6 g13336.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
10 g13336.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
8 g13336.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 81 -
9 g13336.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -
7 g13336.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 113 -
5 g13336.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
4 g13336.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016020 membrane CC
GO:0055085 transmembrane transport BP
GO:0015116 sulfate transmembrane transporter activity MF
GO:0008272 sulfate transport BP
GO:0016021 integral component of membrane CC
GO:0008271 secondary active sulfate transmembrane transporter activity MF

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