General information for g1202.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TSS | g1202.t1 | 8729124 | 8729124 |
| chr_3 | g1202 | g1202.t1 | isoform | g1202.t1 | 8729427 | 8732294 |
| chr_3 | g1202 | g1202.t1 | exon | g1202.t1.exon1 | 8729427 | 8730189 |
| chr_3 | g1202 | g1202.t1 | cds | g1202.t1.CDS1 | 8729427 | 8730189 |
| chr_3 | g1202 | g1202.t1 | exon | g1202.t1.exon2 | 8730282 | 8730445 |
| chr_3 | g1202 | g1202.t1 | cds | g1202.t1.CDS2 | 8730282 | 8730445 |
| chr_3 | g1202 | g1202.t1 | exon | g1202.t1.exon3 | 8730509 | 8730599 |
| chr_3 | g1202 | g1202.t1 | cds | g1202.t1.CDS3 | 8730509 | 8730599 |
| chr_3 | g1202 | g1202.t1 | exon | g1202.t1.exon4 | 8730658 | 8732294 |
| chr_3 | g1202 | g1202.t1 | cds | g1202.t1.CDS4 | 8730658 | 8732294 |
| chr_3 | g1202 | g1202.t1 | TTS | g1202.t1 | 8732683 | 8732683 |
Sequences
>g1202.t1 Gene=g1202 Length=2655
ATGTTTATCGCATTATTTCGTCGTTATAAGCTTCTGTTTTTTCTTGGCATACTAGTTTTA
ATAATTCAAGTATTTCTCGCATATAAATCAATCAAAATTCCCATTGATTCAGGAAATAGA
TTACTTGTAGAGAAATTCAATAATTTTAAGGATAGATTTAATAGTATTCAAGAAAAGCAA
TTATCATTAAATGATGATGAAGACATTATCAATTCAAATATACAGCAGCAAGATGTTGCT
GCAGCTGGCGCCAGTTCAAAGGGCGATAAAGATAAAATAGCAACTCTACTCAGCGAATTA
AAATTCAAACCAAAATGTGATATTTTAAAAGATAAAGAAGTCATATCGGCAGTTCAACGA
GCAAGAACACAGCAATGTAAAGAGCATATAATCAATATTGCATGTCAAATTAAAGCGGGC
GTTTTGTATCCAAAGAAGCTCACCAATACATGCCCAAGTGGAAATTACATAGAAAATCGT
TCTTTAGGATGTTTCAAAGATACTAAAAAGCATCGACTTTTGTCAAGTTTATACTCTAAT
TTCAAGGAAACAAATTCACCAAAGAAATGCATACAGACATGCCTTCAATCGGGTTTCGTT
TATGCCGGTGTGCAATACTCAACTGAGTGTTTTTGCGGTAATAATGAACCTTCATCTGAA
GTAAAATTAGCAGATTCAAGTTGTAATATGAAATGTCCAGCTGAAGCCAAATCTGCATGT
GGAGGCTACTTTACAATGAACATTTATGAGACTGGAATAGCGAAATATACATCACAAATA
GCTGATTCTCAACTAAAAACTGTTGATAATAAAAAAGTCAAAATTGTATTTCTGTTAACG
TTGAACGGTCGTGCTTTGAGACAAGTTTATCGTTTAATCAAATCATTGTATAGCGTTGAT
CACTATTATTTCATACACGTTGATTCGAGACAAGATTACCTTTATCGAGAATTACTAAAA
CTCGAGACAACATTTCCTAATGTAAGACTATCAAGAAAAAGATTAGCAACAATATGGGGT
GGTGCATCTTTATTGGAAATGCTTCTTTCATGTATGAACAGCTTATTAGAATCTGATTGG
GAATGGGACTTTGTTTTGAATCTCAGTGAGAGTGATTTTCCGATAAAAAGCATTGATAAG
CTAACAGAATTCTTGTCTGTAAATCGAGATAAAAACTTTGTGAAATCACACGGTCGGGAA
GTGCACCGGTTTATACAAAAACAAGGTCTAGATAAAACATTTGTCGAATGTGATACACAT
ATGTGGAGAATAGGAGATAGAAATTTGCCAGATGGAATTCAAATTGATGGAGGAAGTGAT
TGGATTTGTTTATCGAGAAAATTTGTTTCATATGTAACAGCCGAAATAAGAGATGATTTA
ATCGAGGGCTTATTGAAAATTTTTCAACACACACTCCTCCCAGCCGAGAGCTTCTTTCAC
ACTGCCATACGAAATTCACTATTTTGCGATACATATGTCGATAATAATCTCCACATAACA
AATTGGAAAAGAAAATTGGGATGTAAATGTCAATATAGACACATTTGTGATTGGTGTGGA
TGCAGTCCAAATGATTTTAAGAATGAAGATTGGCCTCGATTGCAGGCGACCGAACATAAA
CAATTATTCTTCGGAAGAAAATTTGAGCCAGTTGTTAATCAATTAGTGATATTACAGTTA
GAAGAATGGATGAATGGTCCTTATCCTCATGGATACTTAAATTTGAATAGCTATTGGCAA
AGTTCATTTCATCATAAGGATAAAACTCCACCACCTAATCAAGATCTATTACTATTAGCC
AATAGTCTCATACGCATCAATTCAAAATCAAACTCGATTCAACAATTTTATGAGCCAGTT
AAAGTACTTGAAATTACTGATTATTTTGACTTAGACGTTTACAAAGGATTTTTGATTCGA
CATGAGGCAAAAATTAATGTGAATCTTACTGTTGAACTAGAAACATGGTGCCGTCCAAAT
AATCAGCATGCGCAAGTATCTAAAACTAATAAATTAGCTAAGAAAATTATGCAACTAGAA
GTGAGTACAGATTTTGACCAAAAAGAACAAATGTATCGTAATTTTCCGCGAGTGATTGGA
CAAAATTTAGAGCCTGTGTTAGTTATAAAATTATCGGGAATGTCTCAAGTAGAAAATTCA
ACAGTTACTTTGACTGTAGCTTGGATTGATCCGAATGATAAAATCGAGGAAGTTGGAGAG
CTTACTATTGAAGATATCACAATTACTTCAATAAATTTTTCTAAATCAAATATGAAAAAC
CCATTAATGAGTGGTATATGGACAGTTAAACTACTGCAAAAGAAGACACTTATAGGACTT
TCAAAATTTCTTGTCTTACCAACGAATATTGACAGAAATGATGACATACTAATGACCAAA
GATTTAAATGCAAGTCAAAATCAAATAGATAAATTAATAGCAAATTTTTATTTAATAAAA
GATACGTGCATATCCTACAATCAGAAAAATATCCGAGACATAATTGGAACGTATTTAACG
AGCGATGACAATGCAAACTCCAAGAATATAATTAAATTTAATGAGTGTAAGAAAACACTT
TGGAGTACACAAGCACCTGATCCGAAAAGCGAGTTATTAACTGATTTTGCAAATTTTGAT
GGTTCATCTTCATAG
>g1202.t1 Gene=g1202 Length=884
MFIALFRRYKLLFFLGILVLIIQVFLAYKSIKIPIDSGNRLLVEKFNNFKDRFNSIQEKQ
LSLNDDEDIINSNIQQQDVAAAGASSKGDKDKIATLLSELKFKPKCDILKDKEVISAVQR
ARTQQCKEHIINIACQIKAGVLYPKKLTNTCPSGNYIENRSLGCFKDTKKHRLLSSLYSN
FKETNSPKKCIQTCLQSGFVYAGVQYSTECFCGNNEPSSEVKLADSSCNMKCPAEAKSAC
GGYFTMNIYETGIAKYTSQIADSQLKTVDNKKVKIVFLLTLNGRALRQVYRLIKSLYSVD
HYYFIHVDSRQDYLYRELLKLETTFPNVRLSRKRLATIWGGASLLEMLLSCMNSLLESDW
EWDFVLNLSESDFPIKSIDKLTEFLSVNRDKNFVKSHGREVHRFIQKQGLDKTFVECDTH
MWRIGDRNLPDGIQIDGGSDWICLSRKFVSYVTAEIRDDLIEGLLKIFQHTLLPAESFFH
TAIRNSLFCDTYVDNNLHITNWKRKLGCKCQYRHICDWCGCSPNDFKNEDWPRLQATEHK
QLFFGRKFEPVVNQLVILQLEEWMNGPYPHGYLNLNSYWQSSFHHKDKTPPPNQDLLLLA
NSLIRINSKSNSIQQFYEPVKVLEITDYFDLDVYKGFLIRHEAKINVNLTVELETWCRPN
NQHAQVSKTNKLAKKIMQLEVSTDFDQKEQMYRNFPRVIGQNLEPVLVIKLSGMSQVENS
TVTLTVAWIDPNDKIEEVGELTIEDITITSINFSKSNMKNPLMSGIWTVKLLQKKTLIGL
SKFLVLPTNIDRNDDILMTKDLNASQNQIDKLIANFYLIKDTCISYNQKNIRDIIGTYLT
SDDNANSKNIIKFNECKKTLWSTQAPDPKSELLTDFANFDGSSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g1202.t1 | PANTHER | PTHR46025 | XYLOSYLTRANSFERASE OXT | 5 | 872 | 1.8E-216 |
| 3 | g1202.t1 | Pfam | PF01822 | WSC domain | 162 | 242 | 3.0E-18 |
| 1 | g1202.t1 | Pfam | PF02485 | Core-2/I-Branching enzyme | 275 | 528 | 2.1E-40 |
| 2 | g1202.t1 | Pfam | PF12529 | Xylosyltransferase C terminal | 561 | 736 | 4.1E-48 |
| 9 | g1202.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 10 | g1202.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 10 | - |
| 11 | g1202.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 11 | 22 | - |
| 12 | g1202.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 23 | 27 | - |
| 8 | g1202.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 884 | - |
| 7 | g1202.t1 | ProSiteProfiles | PS51212 | WSC domain profile. | 158 | 252 | 12.264 |
| 6 | g1202.t1 | SMART | SM00321 | SLG_2 | 158 | 252 | 5.7E-9 |
| 5 | g1202.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 11 | 28 | - |
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:0016020 | membrane | CC |
| GO:0016757 | glycosyltransferase activity | MF |
| GO:0030158 | protein xylosyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00771 (protein xylosyltransferase)
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.
