General information for g1202.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Xylosyltransferase oxt.
Parent gene
- The parent gene g1202 is located on chr_3: 8731925..8733454 (+ 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 | g1202 | g1202.t4 | isoform | g1202.t4 | 8731305 | 8732700 |
| chr_3 | g1202 | g1202.t4 | exon | g1202.t4.exon1 | 8731305 | 8732700 |
| chr_3 | g1202 | g1202.t4 | cds | g1202.t4.CDS1 | 8731329 | 8732294 |
| chr_3 | g1202 | g1202.t4 | TTS | g1202.t4 | 8732683 | 8732683 |
| chr_3 | g1202 | g1202.t4 | TSS | g1202.t4 | NA | NA |
Sequences
>g1202.t4 Gene=g1202 Length=1396
GTGATATTACAGTTAGAAGAATGGATGAATGGTCCTTATCCTCATGGATACTTAAATTTG
AATAGCTATTGGCAAAGTTCATTTCATCATAAGGATAAAACTCCACCACCTAATCAAGAT
CTATTACTATTAGCCAATAGTCTCATACGCATCAATTCAAAATCAAACTCGATTCAACAA
TTTTATGAGCCAGTTAAAGTACTTGAAATTACTGATTATTTTGACTTAGACGTTTACAAA
GGATTTTTGATTCGACATGAGGCAAAAATTAATGTGAATCTTACTGTTGAACTAGAAACA
TGGTGCCGTCCAAATAATCAGCATGCGCAAGTATCTAAAACTAATAAATTAGCTAAGAAA
ATTATGCAACTAGAAGTGAGTACAGATTTTGACCAAAAAGAACAAATGTATCGTAATTTT
CCGCGAGTGATTGGACAAAATTTAGAGCCTGTGTTAGTTATAAAATTATCGGGAATGTCT
CAAGTAGAAAATTCAACAGTTACTTTGACTGTAGCTTGGATTGATCCGAATGATAAAATC
GAGGAAGTTGGAGAGCTTACTATTGAAGATATCACAATTACTTCAATAAATTTTTCTAAA
TCAAATATGAAAAACCCATTAATGAGTGGTATATGGACAGTTAAACTACTGCAAAAGAAG
ACACTTATAGGACTTTCAAAATTTCTTGTCTTACCAACGAATATTGACAGAAATGATGAC
ATACTAATGACCAAAGATTTAAATGCAAGTCAAAATCAAATAGATAAATTAATAGCAAAT
TTTTATTTAATAAAAGATACGTGCATATCCTACAATCAGAAAAATATCCGAGACATAATT
GGAACGTATTTAACGAGCGATGACAATGCAAACTCCAAGAATATAATTAAATTTAATGAG
TGTAAGAAAACACTTTGGAGTACACAAGCACCTGATCCGAAAAGCGAGTTATTAACTGAT
TTTGCAAATTTTGATGGTTCATCTTCATAGCACTGTAAAACTTATAATCAATAGTAAATA
AGTTTGTTGAAAGGTTAAATTTTCTATGGTAATATCTTTTTGTATATATAATTAAATGAG
ATGTATGTATCCTCAATCAAACTCTCGAATAATTTATTGTAAATTATGAAATTTAATTCA
TCACAGCTGTACTGTATTTTAAAGTGCCATCAAAAATGTGGATGTTTTTTGAAAAAGTGT
TTATTGTCACTTTCATCATCTCTCTATTACTATGCACATTTATATCTTTTAAATGCACAT
TTTAATTGAAAAAGACATTTTATGCTTGCATTTTCAAATTTCTACAATTTATGAAACATG
TTTTTTTTTGTGAAAATTCTATTGACACCTACTTTCGAATTGAAATAAAAATGTTGAAAC
TGAAGCTTTTCCTTTT
>g1202.t4 Gene=g1202 Length=321
MNGPYPHGYLNLNSYWQSSFHHKDKTPPPNQDLLLLANSLIRINSKSNSIQQFYEPVKVL
EITDYFDLDVYKGFLIRHEAKINVNLTVELETWCRPNNQHAQVSKTNKLAKKIMQLEVST
DFDQKEQMYRNFPRVIGQNLEPVLVIKLSGMSQVENSTVTLTVAWIDPNDKIEEVGELTI
EDITITSINFSKSNMKNPLMSGIWTVKLLQKKTLIGLSKFLVLPTNIDRNDDILMTKDLN
ASQNQIDKLIANFYLIKDTCISYNQKNIRDIIGTYLTSDDNANSKNIIKFNECKKTLWST
QAPDPKSELLTDFANFDGSSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1202.t4 | PANTHER | PTHR46025 | XYLOSYLTRANSFERASE OXT | 3 | 309 | 0 |
| 1 | g1202.t4 | Pfam | PF12529 | Xylosyltransferase C terminal | 2 | 173 | 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:0030166 | proteoglycan biosynthetic process | BP |
| GO:0030158 | protein xylosyltransferase 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.
