General information for g10022.t1
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.t1 | TSS | g10022.t1 | 6758473 | 6758473 |
| chr_1 | g10022 | g10022.t1 | isoform | g10022.t1 | 6759002 | 6765817 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon1 | 6759002 | 6759163 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS1 | 6759002 | 6759163 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon2 | 6760938 | 6761120 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS2 | 6760938 | 6761120 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon3 | 6761193 | 6761241 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS3 | 6761193 | 6761241 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon4 | 6762951 | 6763053 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS4 | 6762951 | 6763053 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon5 | 6764943 | 6765081 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS5 | 6764943 | 6765081 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon6 | 6765283 | 6765597 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS6 | 6765283 | 6765597 |
| chr_1 | g10022 | g10022.t1 | exon | g10022.t1.exon7 | 6765662 | 6765817 |
| chr_1 | g10022 | g10022.t1 | cds | g10022.t1.CDS7 | 6765662 | 6765817 |
| chr_1 | g10022 | g10022.t1 | TTS | g10022.t1 | 6766471 | 6766471 |
Sequences
>g10022.t1 Gene=g10022 Length=1107
ATGGCTTTCACAGTGTTTTTACTTTATTTATCAATGTATTTAATTCATAATGCGGTTGGT
ACTTTATGCATAATTAAAACAAGTGAAGATAATAAAAATAACGAGGGAGACATTGATGCA
TCGCGACTTCTTTATAAAGTCAACAATTCAAACCTGTTTGCTGATACTTTAAATATGACG
ACGCAAATGCAGAATCAAAAAGATTATAATACACATGTCAATGTAGAATCGTCGCCAAAT
ATTGATTTAGATGACATTTTTATCAGCGTTAAGACGACGAGAAAGTATCATGAAACTCGT
CTGCGACTTATCATCGAAACGTGGTTTCAACTCGCAAAAGATCAAGTCTGGTTCTTTACC
GACCACGAGGATGAAATTTATCAGAATCTGACGAATAATCATATGGTGCATACCAACTGT
GGCCAGGGTCATAGTCGAAAGAGCTTATGTTGCAAGATGAATAGAGAATTTGATTTCTTT
CTTAGTACATCTAAAAAATTCTGGTGTCACTTTGATGATGACAACTATGTAAATATACCA
ACATTAGTCAAAGTCTTAGGTGACTATCACGCATATCACGAATGGTACCTTGGCAAGCCT
AGTATATCGTCGCCTATTGAAATGTATATGAATGCGGCGATAATGAGCTTAGAGCAGACA
AAAAAATATTCCAAAGAGGAGGAAAAACGTCGCGAGAATGAAAAGGTGAAATTTTGGTTC
GCAACGGGAGGAGCCGGTTTTTGTATAAGTCGTGCATTAGCAATAAAAATGATGCCACTA
ACAAGCAAAGGCAAATTTATAGCAATTGGAGATGGAATAAGATTTCCAGACGATGTAACG
CTTGGTTTTATTATTGAGTACCTTCTGAAAGTTCCTTTAACCGTGGTCAATCCCTTTCAT
TCACATCTTGAACGTATGGATCACATTGACACTGAAATTTTTCGTGATCAGATCTCATTC
AGCTATGCGCACATAAAAGATGATTGGAACGTTGTTAAAGTCGTCAATGGATTCGATACG
ACGAAAGATCCATACCGATTTTATTCATTGCATTGTTACCTTTTCCCACACTTTGAGATG
TGCAAAAGTCTTCGTCTTCGTCGATAG
>g10022.t1 Gene=g10022 Length=368
MAFTVFLLYLSMYLIHNAVGTLCIIKTSEDNKNNEGDIDASRLLYKVNNSNLFADTLNMT
TQMQNQKDYNTHVNVESSPNIDLDDIFISVKTTRKYHETRLRLIIETWFQLAKDQVWFFT
DHEDEIYQNLTNNHMVHTNCGQGHSRKSLCCKMNREFDFFLSTSKKFWCHFDDDNYVNIP
TLVKVLGDYHAYHEWYLGKPSISSPIEMYMNAAIMSLEQTKKYSKEEEKRRENEKVKFWF
ATGGAGFCISRALAIKMMPLTSKGKFIAIGDGIRFPDDVTLGFIIEYLLKVPLTVVNPFH
SHLERMDHIDTEIFRDQISFSYAHIKDDWNVVKVVNGFDTTKDPYRFYSLHCYLFPHFEM
CKSLRLRR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10022.t1 | Gene3D | G3DSA:3.90.550.50 | - | 73 | 366 | 1.4E-119 |
| 2 | g10022.t1 | PANTHER | PTHR10811 | FRINGE-RELATED | 62 | 362 | 2.5E-120 |
| 3 | g10022.t1 | PANTHER | PTHR10811:SF103 | FRINGE GLYCOSYLTRANSFERASE | 62 | 362 | 2.5E-120 |
| 1 | g10022.t1 | Pfam | PF02434 | Fringe-like | 80 | 346 | 8.0E-94 |
| 7 | g10022.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 8 | g10022.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 9 | g10022.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 10 | g10022.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 6 | g10022.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 368 | - |
| 4 | g10022.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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 transcript has been annotated with K05948 (fringe)
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.
