Gene loci information

Transcript annotation

  • This transcript has been annotated as Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase I.

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 g3438 g3438.t2 TSS g3438.t2 25450984 25450984
chr_3 g3438 g3438.t2 isoform g3438.t2 25451066 25451882
chr_3 g3438 g3438.t2 exon g3438.t2.exon1 25451066 25451316
chr_3 g3438 g3438.t2 cds g3438.t2.CDS1 25451066 25451316
chr_3 g3438 g3438.t2 exon g3438.t2.exon2 25451428 25451593
chr_3 g3438 g3438.t2 cds g3438.t2.CDS2 25451428 25451593
chr_3 g3438 g3438.t2 exon g3438.t2.exon3 25451650 25451882
chr_3 g3438 g3438.t2 cds g3438.t2.CDS3 25451650 25451880
chr_3 g3438 g3438.t2 TTS g3438.t2 25452335 25452335

Sequences

>g3438.t2 Gene=g3438 Length=650
ATGACAAAATATTCACCATTAACACGTAAAATGAGTAATGAAGTTCGAATAAGTCAGAGA
AAATTTATTGCAATTGTGATAATAGTTGTTATTTTACTCATCTATACTCTAACTAGAAGT
TCATCTTGTGATAGTAAAGAATTTACGATAAATAATAATCAACAACAATCTCAATCATTA
GATAATAAACCAATAATTTATGCAATCACTCCAACTTATGCACGACCTGTACAGAAAGCA
GAATTAACCAGGTTATCGCATGTATTTCGTTTGGTTCCAAATTTATTTTGGGTGATTGTA
GAAGATGCAGACGAAACGAGTGCTTTAGTGCGAAATCTTGTCAATAGAGCAATGTTATCT
CAAAGATGTGTTTTACTTAATGCAAAAACTCCAACCAATTTTAAACTATCGAAAAGAGAT
CCACATTGGAGTAAACCTCGCGGAGTGGAACAAAGAAACGAAGCACTTAAGTGGATAAGA
AAGAAAATTAAACATGAGCCAGGTCATTCGATTGTTTATTTCATGGATGATGATAACTCT
TATAGTACAGAATTATTTGAAGAAATGTCTAAGATTGAACGTATGAGAGTAGGTGTATGG
CCTGTGGGTCTAGTTGGTGCAATGAAAGTTGAGAAACCAATTGTTGAAAA

>g3438.t2 Gene=g3438 Length=216
MTKYSPLTRKMSNEVRISQRKFIAIVIIVVILLIYTLTRSSSCDSKEFTINNNQQQSQSL
DNKPIIYAITPTYARPVQKAELTRLSHVFRLVPNLFWVIVEDADETSALVRNLVNRAMLS
QRCVLLNAKTPTNFKLSKRDPHWSKPRGVEQRNEALKWIRKKIKHEPGHSIVYFMDDDNS
YSTELFEEMSKIERMRVGVWPVGLVGAMKVEKPIVE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3438.t2 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 62 216 2.0E-58
2 g3438.t2 PANTHER PTHR10896 GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE BETA-1,3-GLUCURONYLTRANSFERASE 51 216 5.2E-50
3 g3438.t2 PANTHER PTHR10896:SF9 GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE 3 51 216 5.2E-50
1 g3438.t2 Pfam PF03360 Glycosyltransferase family 43 85 215 4.2E-34
7 g3438.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
9 g3438.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 38 -
8 g3438.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 39 216 -
5 g3438.t2 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 64 216 5.44E-49
4 g3438.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 38 -

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:0015018 galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 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.

Raw TPM values