General information for g10022.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fringe glycosyltransferase.
Parent gene
- The parent gene g10022 is located on chr_1: 6765817..6766476 (+ 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_1 | g10022 | g10022.t3 | isoform | g10022.t3 | 6760943 | 6765593 |
| chr_1 | g10022 | g10022.t3 | exon | g10022.t3.exon1 | 6760943 | 6761120 |
| chr_1 | g10022 | g10022.t3 | cds | g10022.t3.CDS1 | 6760962 | 6761120 |
| chr_1 | g10022 | g10022.t3 | exon | g10022.t3.exon2 | 6761193 | 6761241 |
| chr_1 | g10022 | g10022.t3 | cds | g10022.t3.CDS2 | 6761193 | 6761241 |
| chr_1 | g10022 | g10022.t3 | exon | g10022.t3.exon3 | 6762951 | 6763053 |
| chr_1 | g10022 | g10022.t3 | cds | g10022.t3.CDS3 | 6762951 | 6763053 |
| chr_1 | g10022 | g10022.t3 | exon | g10022.t3.exon4 | 6764943 | 6765081 |
| chr_1 | g10022 | g10022.t3 | cds | g10022.t3.CDS4 | 6764943 | 6765081 |
| chr_1 | g10022 | g10022.t3 | exon | g10022.t3.exon5 | 6765283 | 6765593 |
| chr_1 | g10022 | g10022.t3 | cds | g10022.t3.CDS5 | 6765283 | 6765591 |
| chr_1 | g10022 | g10022.t3 | TTS | g10022.t3 | 6766471 | 6766471 |
| chr_1 | g10022 | g10022.t3 | TSS | g10022.t3 | NA | NA |
Sequences
>g10022.t3 Gene=g10022 Length=780
TTTAAATATGACGACGCAAATGCAGAATCAAAAAGATTATAATACACATGTCAATGTAGA
ATCGTCGCCAAATATTGATTTAGATGACATTTTTATCAGCGTTAAGACGACGAGAAAGTA
TCATGAAACTCGTCTGCGACTTATCATCGAAACGTGGTTTCAACTCGCAAAAGATCAAGT
CTGGTTCTTTACCGACCACGAGGATGAAATTTATCAGAATCTGACGAATAATCATATGGT
GCATACCAACTGTGGCCAGGGTCATAGTCGAAAGAGCTTATGTTGCAAGATGAATAGAGA
ATTTGATTTCTTTCTTAGTACATCTAAAAAATTCTGGTGTCACTTTGATGATGACAACTA
TGTAAATATACCAACATTAGTCAAAGTCTTAGGTGACTATCACGCATATCACGAATGGTA
CCTTGGCAAGCCTAGTATATCGTCGCCTATTGAAATGTATATGAATGCGGCGATAATGAG
CTTAGAGCAGACAAAAAAATATTCCAAAGAGGAGGAAAAACGTCGCGAGAATGAAAAGGT
GAAATTTTGGTTCGCAACGGGAGGAGCCGGTTTTTGTATAAGTCGTGCATTAGCAATAAA
AATGATGCCACTAACAAGCAAAGGCAAATTTATAGCAATTGGAGATGGAATAAGATTTCC
AGACGATGTAACGCTTGGTTTTATTATTGAGTACCTTCTGAAAGTTCCTTTAACCGTGGT
CAATCCCTTTCATTCACATCTTGAACGTATGGATCACATTGACACTGAAATTTTTCGTGA
>g10022.t3 Gene=g10022 Length=253
MQNQKDYNTHVNVESSPNIDLDDIFISVKTTRKYHETRLRLIIETWFQLAKDQVWFFTDH
EDEIYQNLTNNHMVHTNCGQGHSRKSLCCKMNREFDFFLSTSKKFWCHFDDDNYVNIPTL
VKVLGDYHAYHEWYLGKPSISSPIEMYMNAAIMSLEQTKKYSKEEEKRRENEKVKFWFAT
GGAGFCISRALAIKMMPLTSKGKFIAIGDGIRFPDDVTLGFIIEYLLKVPLTVVNPFHSH
LERMDHIDTEIFR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10022.t3 | Gene3D | G3DSA:3.90.550.50 | - | 11 | 253 | 5.3E-97 |
| 2 | g10022.t3 | PANTHER | PTHR10811 | FRINGE-RELATED | 10 | 252 | 4.0E-97 |
| 3 | g10022.t3 | PANTHER | PTHR10811:SF103 | FRINGE GLYCOSYLTRANSFERASE | 10 | 252 | 4.0E-97 |
| 1 | g10022.t3 | Pfam | PF02434 | Fringe-like | 18 | 250 | 7.7E-84 |
| 4 | g10022.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 176 | 193 | - |
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:0016757 | glycosyltransferase 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.
