Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Solute carrier family 26 member 6.

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_4 g16999 g16999.t3 TSS g16999.t3 12000792 12000792
chr_4 g16999 g16999.t3 isoform g16999.t3 12001435 12002020
chr_4 g16999 g16999.t3 exon g16999.t3.exon1 12001435 12001938
chr_4 g16999 g16999.t3 cds g16999.t3.CDS1 12001599 12001938
chr_4 g16999 g16999.t3 exon g16999.t3.exon2 12001990 12002020
chr_4 g16999 g16999.t3 cds g16999.t3.CDS2 12001990 12002018
chr_4 g16999 g16999.t3 TTS g16999.t3 NA NA

Sequences

>g16999.t3 Gene=g16999 Length=535
TTTTTCAATCAATAAAATCGTCAATAGAATCAATCAAATTCAAAACTTTAATTTTTAATC
TCATTCCAATTCTCGACTGGCTTCCAAAATATAAAATAAAAAGTTTTCTCATTGGTGACG
TAATTGCTGGTATAACAGTTTCAATTCTTGCAATTCCTCAAGGAATGGCGTATGGCTTAC
TAGCTGGTCTAGATCCAGTTGCTGGTCTTTATATGGCATTTTTTCCTGTCTTAATTTATT
TTATTTTTGGATCATCACGACATGTCAGTGTTGGAACATTTGCAATTGTGTCAATTATGA
CATCAAAAGTTGTTGCAACATATTCTGATCCTAATTACGGAACTCCTGAAGCATTTAAAG
AAAATAGCTTTAGTAACTATCAAGTAGCAACAGCAGCAACATTGGCATGTGGAATTTTTC
ATTTAGGAATGTTTGTATTACAATTGGGAGTTGTTGCATCATTGCTATCTGAAGCATTAG
TTAGTGGATTCACAACAGGATCAGCAATTCATGTTGTCATCACACAAACAAAAGA

>g16999.t3 Gene=g16999 Length=123
MAYGLLAGLDPVAGLYMAFFPVLIYFIFGSSRHVSVGTFAIVSIMTSKVVATYSDPNYGT
PEAFKENSFSNYQVATAATLACGIFHLGMFVLQLGVVASLLSEALVSGFTTGSAIHVVIT
QTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16999.t3 PANTHER PTHR11814:SF180 ANION TRANSPORTER SULP-8A 1 123 3.0E-35
3 g16999.t3 PANTHER PTHR11814 SULFATE TRANSPORTER 1 123 3.0E-35
1 g16999.t3 Pfam PF00916 Sulfate permease family 1 122 1.9E-32
10 g16999.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
14 g16999.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 29 -
9 g16999.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 30 35 -
13 g16999.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 54 -
11 g16999.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 55 73 -
12 g16999.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 101 -
8 g16999.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 102 123 -
7 g16999.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
6 g16999.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 34 53 -
5 g16999.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 73 92 -
4 g16999.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -

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