Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Heparan-sulfate 6-O-sulfotransferase 3-B.

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_3 g3819 g3819.t9 TTS g3819.t9 28177255 28177255
chr_3 g3819 g3819.t9 isoform g3819.t9 28177355 28179647
chr_3 g3819 g3819.t9 exon g3819.t9.exon1 28177355 28177416
chr_3 g3819 g3819.t9 cds g3819.t9.CDS1 28177413 28177416
chr_3 g3819 g3819.t9 exon g3819.t9.exon2 28177535 28177754
chr_3 g3819 g3819.t9 cds g3819.t9.CDS2 28177535 28177754
chr_3 g3819 g3819.t9 exon g3819.t9.exon3 28177822 28177944
chr_3 g3819 g3819.t9 cds g3819.t9.CDS3 28177822 28177944
chr_3 g3819 g3819.t9 exon g3819.t9.exon4 28178003 28178059
chr_3 g3819 g3819.t9 cds g3819.t9.CDS4 28178003 28178048
chr_3 g3819 g3819.t9 exon g3819.t9.exon5 28178127 28178218
chr_3 g3819 g3819.t9 exon g3819.t9.exon6 28178285 28178435
chr_3 g3819 g3819.t9 exon g3819.t9.exon7 28178505 28178595
chr_3 g3819 g3819.t9 exon g3819.t9.exon8 28178661 28178711
chr_3 g3819 g3819.t9 exon g3819.t9.exon9 28179479 28179647
chr_3 g3819 g3819.t9 TSS g3819.t9 28179647 28179647

Sequences

>g3819.t9 Gene=g3819 Length=1016
ATAGAAAAGAAAACTCAAAGGAAAAATATCAAAAACAAAAAAGTTTAGCATAAAAGTAAA
TTTAATGTAGTTTATAAGCAAAAAAATAAAATCAAAATGAGTGCAGATTAAATTTAAGAT
GAGATTAAAGTCAAATATTTATATTGAAGTGTATCACAAAAAGAGTTGAACCGGTGGAAC
TTCGTTCGGAAAGCATTTAGTAAGAGATTTAGATTTAAAGAGAAAATGCACATGCCAGAG
AAAGAAAAAACGATGTTACTGCTTTAGACCAAATAGAAATGAAAATTGGCTATTTAGTCG
ATACTCGACAGGTTGGAAGTGTGGCTTGCATGCCGATTGGACTGAACTCATTTCTTGTGT
TGACCAAGAGTTTGATAAAAATGAGGGTGAGACAACGAAAAGAAGATACTTTTATATTAC
ACTCTTAAGATCGCCTATCGCTCGATATCTGTCAGAATATAGACATGTACAACGAGGAGC
AACATGGAAAAATTCTAGACATTTTTGTCTTGGTCGTCAAGCGACGAGTGAAGAACTTCC
GCCGTGTTACACAGGAGACGACTGGATGGATGTAACTTTGGACGAGTTTGCAGATTGTGA
AAGTAATTTGGCTGCAAACCGTCAAACTCGAATGCTCGCTGATTTAGCACTAGTTAACTG
TTACAATAAGACTGGCATGTCATCTGAAGAAAGAGACAGAATTATGCTTGCAAGTGCAAA
AAGAAACTTGGCGGCCATGTCATTCTTTGGTCTAACCGAGTATCAAAAAATTTCACAATA
CATTTTTGAAGAAACTTTCAATCTCAGGTTTGCAATTCCTTTTGAACAGCACAACTCAAC
ATTGTCCATGCAAGCATTTGAAAGCTTAACTGAAGCTCAACAAACAAAAATTAAAAAGAT
TAATGCACTCGATATAGAACTTTATGATTTTGCTAAAGAATTAATGTTTCAAAGGTAATA
TTAGAGATAAAGGAAGCGAATTTAATTGGGACACTGTAATGGATAATGTAAATTAA

>g3819.t9 Gene=g3819 Length=130
MDVTLDEFADCESNLAANRQTRMLADLALVNCYNKTGMSSEERDRIMLASAKRNLAAMSF
FGLTEYQKISQYIFEETFNLRFAIPFEQHNSTLSMQAFESLTEAQQTKIKKINALDIELY
DFAKELMFQR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3819.t9 PANTHER PTHR12812 HEPARAN SULFATE 6-O-SULFOTRANSFERASE 3 3 130 0
3 g3819.t9 PANTHER PTHR12812:SF3 HEPARAN-SULFATE 6-O-SULFOTRANSFERASE 3 3 130 0
1 g3819.t9 Pfam PF03567 Sulfotransferase family 2 123 0

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:0008146 sulfotransferase activity MF
GO:0016021 integral component of membrane CC

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