General information for g4514.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycogen phosphorylase.
Parent gene
- The parent gene g4514 is located on chr_2: 2964455..2965103 (- 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_2 | g4514 | g4514.t4 | isoform | g4514.t4 | 2961061 | 2962253 |
| chr_2 | g4514 | g4514.t4 | exon | g4514.t4.exon1 | 2961061 | 2961655 |
| chr_2 | g4514 | g4514.t4 | cds | g4514.t4.CDS1 | 2961503 | 2961655 |
| chr_2 | g4514 | g4514.t4 | exon | g4514.t4.exon2 | 2961716 | 2962017 |
| chr_2 | g4514 | g4514.t4 | cds | g4514.t4.CDS2 | 2961716 | 2962017 |
| chr_2 | g4514 | g4514.t4 | exon | g4514.t4.exon3 | 2962076 | 2962253 |
| chr_2 | g4514 | g4514.t4 | cds | g4514.t4.CDS3 | 2962076 | 2962175 |
| chr_2 | g4514 | g4514.t4 | TSS | g4514.t4 | NA | NA |
| chr_2 | g4514 | g4514.t4 | TTS | g4514.t4 | NA | NA |
Sequences
>g4514.t4 Gene=g4514 Length=1075
AACAACGATCCAATCGTTGGAGATAAATTGAAAGTTATCTATTTGGAAAATTATCGCGTA
ACATTGGCGGAAAAGATTATGCCAGCAGCTGATTTATCACAACAAATCTCAACAGCTGGT
ACAGAGGCATCAGGAACTGGTAACATGAAATTCATGTTGAACGGTGCTCTCACTATTGGT
ACACTTGATGGAGCTAATATTGAGATGGCTGAAGAAATGGGAATGGAAAACATTTTCATT
TTTGGTATGACTGTTGAACAAGTCGAAGCATTACGCAATTATAATGCATGGGATTATTAT
AATCGAAATGCTGAATTGAAGCAAGTCATTGATCAGATTTCAGGCGGCTATTATAGCCCT
GGAAATCCTGATGAATTCAAGGACGTTACCAATATGTTGATGCAATATGATCGTTTCTTC
ACATTTGCTGATTACGATGACTATGTTAAAAAGCAAGACGAAGTCTCTGCTACTTATCAA
AATCAATCAAAATGGGTTGAAATGGCAATTCATAATATTGCTAGCAGTGGCAAATTCTCA
AGCGATCGTACAATCAGCGAATATGCTCGCGAAATTTGGGGTGTTCAGCCTTCATATGAG
AAATTGCCAAACCCACATGAAGTTATTGCCTAAATCAGCCCTAAATGTTCTGATGTTTTT
GTCGCGTCATGAAAGTTTTCATGCTTATATTGTTTCACTTATGATGCGAATATAAACTGC
CCTAAAACATCATATTAATCTCGCCATAGAACAATTTAAAAATTTAATGTTTTTTGTTTT
AAAGTTTTAGTTGATGATTTCTATATATTATACATACATACAATTATTGTGTTTCTTTTT
GTAATTTTATTTAGTTTTTATGAATGTTATTATATAATCAAAAGGGAAAAAATCTGAAAA
TTAATTTCTTGTTAATAAAATAAAAATTTTAAAAATAAAAAGATACAATATTCTAAAGTT
TAAAAAAATCAATCAAAAACCATGTTTTTTGAACTGTTTAAGTAGCTTTTATATATTTTA
TTCAAATCGAGTTAATAAAACTATTCAAATAATGTAATAAATAACAATGTGGGTT
>g4514.t4 Gene=g4514 Length=184
MPAADLSQQISTAGTEASGTGNMKFMLNGALTIGTLDGANIEMAEEMGMENIFIFGMTVE
QVEALRNYNAWDYYNRNAELKQVIDQISGGYYSPGNPDEFKDVTNMLMQYDRFFTFADYD
DYVKKQDEVSATYQNQSKWVEMAIHNIASSGKFSSDRTISEYAREIWGVQPSYEKLPNPH
EVIA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4514.t4 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 1 | 154 | 4.1E-68 |
| 2 | g4514.t4 | PANTHER | PTHR11468 | GLYCOGEN PHOSPHORYLASE | 1 | 181 | 3.8E-89 |
| 3 | g4514.t4 | PANTHER | PTHR11468:SF13 | GLYCOGEN PHOSPHORYLASE, MUSCLE FORM | 1 | 181 | 3.8E-89 |
| 1 | g4514.t4 | Pfam | PF00343 | Carbohydrate phosphorylase | 1 | 169 | 1.8E-74 |
| 5 | g4514.t4 | ProSitePatterns | PS00102 | Phosphorylase pyridoxal-phosphate attachment site. | 16 | 28 | - |
| 4 | g4514.t4 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 1 | 171 | 5.73E-68 |
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:0005975 | carbohydrate metabolic process | BP |
| GO:0008184 | glycogen phosphorylase 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.
