General information for g3438.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase I.
Parent gene
- The parent gene g3438 is located on chr_3: 25451650..25452253 (+ strand)
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.t1 | TSS | g3438.t1 | 25450984 | 25450984 |
| chr_3 | g3438 | g3438.t1 | isoform | g3438.t1 | 25451066 | 25452253 |
| chr_3 | g3438 | g3438.t1 | exon | g3438.t1.exon1 | 25451066 | 25451316 |
| chr_3 | g3438 | g3438.t1 | cds | g3438.t1.CDS1 | 25451066 | 25451316 |
| chr_3 | g3438 | g3438.t1 | exon | g3438.t1.exon2 | 25451428 | 25451593 |
| chr_3 | g3438 | g3438.t1 | cds | g3438.t1.CDS2 | 25451428 | 25451593 |
| chr_3 | g3438 | g3438.t1 | exon | g3438.t1.exon3 | 25451650 | 25451906 |
| chr_3 | g3438 | g3438.t1 | cds | g3438.t1.CDS3 | 25451650 | 25451906 |
| chr_3 | g3438 | g3438.t1 | exon | g3438.t1.exon4 | 25451971 | 25452253 |
| chr_3 | g3438 | g3438.t1 | cds | g3438.t1.CDS4 | 25451971 | 25452253 |
| chr_3 | g3438 | g3438.t1 | TTS | g3438.t1 | 25452335 | 25452335 |
Sequences
>g3438.t1 Gene=g3438 Length=957
ATGACAAAATATTCACCATTAACACGTAAAATGAGTAATGAAGTTCGAATAAGTCAGAGA
AAATTTATTGCAATTGTGATAATAGTTGTTATTTTACTCATCTATACTCTAACTAGAAGT
TCATCTTGTGATAGTAAAGAATTTACGATAAATAATAATCAACAACAATCTCAATCATTA
GATAATAAACCAATAATTTATGCAATCACTCCAACTTATGCACGACCTGTACAGAAAGCA
GAATTAACCAGGTTATCGCATGTATTTCGTTTGGTTCCAAATTTATTTTGGGTGATTGTA
GAAGATGCAGACGAAACGAGTGCTTTAGTGCGAAATCTTGTCAATAGAGCAATGTTATCT
CAAAGATGTGTTTTACTTAATGCAAAAACTCCAACCAATTTTAAACTATCGAAAAGAGAT
CCACATTGGAGTAAACCTCGCGGAGTGGAACAAAGAAACGAAGCACTTAAGTGGATAAGA
AAGAAAATTAAACATGAGCCAGGTCATTCGATTGTTTATTTCATGGATGATGATAACTCT
TATAGTACAGAATTATTTGAAGAAATGTCTAAGATTGAACGTATGAGAGTAGGTGTATGG
CCTGTGGGTCTAGTTGGTGCAATGAAAGTTGAGAAACCAATTGTTGAAAATGATAAAGTT
GTCGGATTCAACAGCGTTTGGCGACCAGAGCGACCATTTCCAATAGATATGGCTGGTTTT
GCGATAAGTAGTGATTTATTTGAAGCGAATCCTAGCGCTCAATTTAACTATGAAGTAGAA
AAGGGATATCAAGAAAGTGAAATATTAAGACAAGTAACTACACGTGAGAAACTTCAACCT
ATTGCATCAAATCAAATTTTAGTTTGGCATACAAGAACAGAAGCATCAAAAATGGATAAT
GAGATTAAATTAGGCAAAAAAGGACTACCTCCTAGCGATGAAGGGATGATCATTTAG
>g3438.t1 Gene=g3438 Length=318
MTKYSPLTRKMSNEVRISQRKFIAIVIIVVILLIYTLTRSSSCDSKEFTINNNQQQSQSL
DNKPIIYAITPTYARPVQKAELTRLSHVFRLVPNLFWVIVEDADETSALVRNLVNRAMLS
QRCVLLNAKTPTNFKLSKRDPHWSKPRGVEQRNEALKWIRKKIKHEPGHSIVYFMDDDNS
YSTELFEEMSKIERMRVGVWPVGLVGAMKVEKPIVENDKVVGFNSVWRPERPFPIDMAGF
AISSDLFEANPSAQFNYEVEKGYQESEILRQVTTREKLQPIASNQILVWHTRTEASKMDN
EIKLGKKGLPPSDEGMII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3438.t1 | CDD | cd00218 | GlcAT-I | 64 | 295 | 3.75755E-109 |
| 6 | g3438.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 65 | 317 | 9.4E-94 |
| 2 | g3438.t1 | PANTHER | PTHR10896 | GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE BETA-1,3-GLUCURONYLTRANSFERASE | 51 | 309 | 9.2E-85 |
| 3 | g3438.t1 | PANTHER | PTHR10896:SF9 | GALACTOSYLGALACTOSYLXYLOSYLPROTEIN 3-BETA-GLUCURONOSYLTRANSFERASE 3 | 51 | 309 | 9.2E-85 |
| 1 | g3438.t1 | Pfam | PF03360 | Glycosyltransferase family 43 | 85 | 294 | 2.6E-59 |
| 7 | g3438.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 9 | g3438.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 38 | - |
| 8 | g3438.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 39 | 318 | - |
| 5 | g3438.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 64 | 301 | 2.34E-80 |
| 4 | g3438.t1 | 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 transcript has been annotated with K10158 (galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3)
Pathway
- This transcript belongs to the following pathways
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.
