Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 TSS g16999.t2 12000792 12000792
chr_4 g16999 g16999.t2 isoform g16999.t2 12000836 12003668
chr_4 g16999 g16999.t2 exon g16999.t2.exon1 12000836 12000977
chr_4 g16999 g16999.t2 cds g16999.t2.CDS1 12000836 12000977
chr_4 g16999 g16999.t2 exon g16999.t2.exon2 12001435 12001938
chr_4 g16999 g16999.t2 cds g16999.t2.CDS2 12001435 12001938
chr_4 g16999 g16999.t2 exon g16999.t2.exon3 12002020 12002613
chr_4 g16999 g16999.t2 cds g16999.t2.CDS3 12002020 12002613
chr_4 g16999 g16999.t2 exon g16999.t2.exon4 12002959 12003668
chr_4 g16999 g16999.t2 cds g16999.t2.CDS4 12002959 12003668
chr_4 g16999 g16999.t2 TTS g16999.t2 12003890 12003890

Sequences

>g16999.t2 Gene=g16999 Length=1950
ATGAATGACAAAGATATACACATAAGTTTGACTGAAAATGGCACAAACATTAAACATTCA
ATTCCTTATGAAATTACGAGAAAAGTAATGAAAAGTGAAGAACTTGAAAAATTTACTGGA
TTTGAAGGGCACAAAAATTCTTTTTTTCAATCAATAAAATCGTCAATAGAATCAATCAAA
TTCAAAACTTTAATTTTTAATCTCATTCCAATTCTCGACTGGCTTCCAAAATATAAAATA
AAAAGTTTTCTCATTGGTGACGTAATTGCTGGTATAACAGTTTCAATTCTTGCAATTCCT
CAAGGAATGGCGTATGGCTTACTAGCTGGTCTAGATCCAGTTGCTGGTCTTTATATGGCA
TTTTTTCCTGTCTTAATTTATTTTATTTTTGGATCATCACGACATGTCAGTGTTGGAACA
TTTGCAATTGTGTCAATTATGACATCAAAAGTTGTTGCAACATATTCTGATCCTAATTAC
GGAACTCCTGAAGCATTTAAAGAAAATAGCTTTAGTAACTATCAAGTAGCAACAGCAGCA
ACATTGGCATGTGGAATTTTTCATTTAGGAATGTTTGTATTACAATTGGGAGTTGTTGCA
TCATTGCTATCTGAAGCATTAGTTAGTGGATTCACAACAGGATCAGATTTATTAGGAATT
TCATTTCCAAGACACAAAGGAGCATTTAAAGCAATTTTATCAGTCAAAGACATCATCTTA
CAAATTCCACATGCAAATCTTTACACCGTCTATGTATCAGTTTCTTGTATGATTTTTCTA
ATCATTGTCAATGAAATTTTAAGACCAATTGTAGCAAAAAAGACAAAATTGCCAATTCCT
GCTGAACTTATTGCTGTGATTGTTTACACAGCTGTTTCATATTTGATGAATTTTAATGAA
AATTATAAAATTGATATTGTTGGTAAAATTCCAACTGGACTTCCAACACCTCAATTTCCA
TCATTAAATCTTGTCTACATGGTTGCTGTTGATTCTATAGCTATAACTGTAGTTAGTTAT
TCAATTGTCGTTAGCATGGGATTGATTTGTGCCAAAAAAGATAAAACTTATGAAGTTCGA
CCTAATCAAGAGTTATTAGCTTTGGGTGCTGCAAATGTTTTTGGTTCTTGCTTTTCTTGT
ATTCCTTTGGCTTGCGCATTATCAAGGACTATGGTATTGTATCAACTTGGTGGAAAAACA
CAAATTGTTTCAGTCGTTTCAGCTTTGATTATTTTAATGTTGCTTCTTTGGATTGGACCA
CTTTTTGAAACATTACCAAGAGCAATTTTAGCAGCAATTATTATTGTCGCATTGAAATCT
ATGCTTTGGCAATTTAAAGACATCAAAAAATATTACAAAGAAAGTAAACTTGATGCTCTT
GTTTGGCTTGGAACTTTTTGTACTGTTGTGATTATTGACATTGACATTGGACTTCTTGTT
GGATTTATTTTATCACTTTTTACTCTTTATATGAAAGGATTTAAAAGTTATTCATGCATG
CTTGGTCAAGTAACTGGAACAGAAATTTATGTCGATTTAAAATCTCATAAAAATATCAAA
GAAATTCCAGGTGTTAAAATTTTCAAATATTTTGGATCAATCAATTTTGCAACTTGTTCA
AATTTTAAGAAAAATCTTTTTGAAAATTTAAATATTGATTGTCATAAAATCAAAGCAGCA
TCACATTTTGATGAAAAAGAATTGAATGATAGAATGAAAACATTAATTATTGATCTTAGT
GCAGTTGCACATCTTGATGTTCGTGGTTATCGAATGATTTTGGAAATTAAAAATGAATTA
AAAATTATGGATGTCAATGTATTGCTTGCTTGTGTCAGTGATGTTGTTTATACTTCAATT
CAAAGAGCTGTAAACATTGGTGATGGAGAAATTGAAATTTTTCCTACAATTCATGATGCT
ATTTTATTTTCTGAAAAGAAATTTGAATGA

>g16999.t2 Gene=g16999 Length=649
MNDKDIHISLTENGTNIKHSIPYEITRKVMKSEELEKFTGFEGHKNSFFQSIKSSIESIK
FKTLIFNLIPILDWLPKYKIKSFLIGDVIAGITVSILAIPQGMAYGLLAGLDPVAGLYMA
FFPVLIYFIFGSSRHVSVGTFAIVSIMTSKVVATYSDPNYGTPEAFKENSFSNYQVATAA
TLACGIFHLGMFVLQLGVVASLLSEALVSGFTTGSDLLGISFPRHKGAFKAILSVKDIIL
QIPHANLYTVYVSVSCMIFLIIVNEILRPIVAKKTKLPIPAELIAVIVYTAVSYLMNFNE
NYKIDIVGKIPTGLPTPQFPSLNLVYMVAVDSIAITVVSYSIVVSMGLICAKKDKTYEVR
PNQELLALGAANVFGSCFSCIPLACALSRTMVLYQLGGKTQIVSVVSALIILMLLLWIGP
LFETLPRAILAAIIIVALKSMLWQFKDIKKYYKESKLDALVWLGTFCTVVIIDIDIGLLV
GFILSLFTLYMKGFKSYSCMLGQVTGTEIYVDLKSHKNIKEIPGVKIFKYFGSINFATCS
NFKKNLFENLNIDCHKIKAASHFDEKELNDRMKTLIIDLSAVAHLDVRGYRMILEIKNEL
KIMDVNVLLACVSDVVYTSIQRAVNIGDGEIEIFPTIHDAILFSEKKFE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
32 g16999.t2 CDD cd07042 STAS_SulP_like_sulfate_transporter 516 637 3.85498E-13
8 g16999.t2 Gene3D G3DSA:3.30.750.24 - 497 648 8.6E-31
3 g16999.t2 PANTHER PTHR11814 SULFATE TRANSPORTER 18 160 5.2E-215
5 g16999.t2 PANTHER PTHR11814:SF189 FI18412P1 18 160 5.2E-215
4 g16999.t2 PANTHER PTHR11814 SULFATE TRANSPORTER 173 645 5.2E-215
6 g16999.t2 PANTHER PTHR11814:SF189 FI18412P1 173 645 5.2E-215
1 g16999.t2 Pfam PF00916 Sulfate permease family 84 464 2.4E-96
2 g16999.t2 Pfam PF01740 STAS domain 517 640 3.3E-18
19 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 79 -
22 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 80 99 -
13 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 100 105 -
27 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 106 130 -
18 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 131 135 -
30 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 155 -
12 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 156 175 -
21 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 176 203 -
20 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 204 247 -
29 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 248 267 -
10 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 268 278 -
31 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 279 296 -
16 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 297 323 -
23 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 324 344 -
9 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 345 364 -
26 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 365 389 -
17 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 390 400 -
28 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 401 421 -
11 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 422 427 -
24 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 428 445 -
15 g16999.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 446 459 -
25 g16999.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 460 490 -
14 g16999.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 491 649 -
43 g16999.t2 ProSiteProfiles PS50801 STAS domain profile. 515 644 20.918
7 g16999.t2 SUPERFAMILY SSF52091 SpoIIaa-like 518 640 7.06E-13
44 g16999.t2 TIGRFAM TIGR00815 sulP: sulfate permease 70 640 2.1E-130
38 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -
36 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 114 131 -
42 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -
35 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 245 267 -
40 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 279 298 -
41 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 322 344 -
33 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 365 387 -
34 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 402 421 -
37 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 428 445 -
39 g16999.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 460 482 -

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