General information for g4375.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycogen debranching enzyme.
Parent gene
- The parent gene g4375 is located on chr_2: 1725663..1726416 (+ 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 | g4375 | g4375.t4 | isoform | g4375.t4 | 1724347 | 1726223 |
| chr_2 | g4375 | g4375.t4 | exon | g4375.t4.exon1 | 1724347 | 1725501 |
| chr_2 | g4375 | g4375.t4 | cds | g4375.t4.CDS1 | 1724814 | 1725284 |
| chr_2 | g4375 | g4375.t4 | exon | g4375.t4.exon2 | 1726115 | 1726223 |
| chr_2 | g4375 | g4375.t4 | TTS | g4375.t4 | 1726420 | 1726420 |
| chr_2 | g4375 | g4375.t4 | TSS | g4375.t4 | NA | NA |
Sequences
>g4375.t4 Gene=g4375 Length=1264
GGTAAGAAAACTTAATTTTTTCATTGCTGCATATTGAAAATACATTTTATTTTGCAGATT
ATATGTTTAATCGATTAAGACAATCTGATAAAACTAAAGAACTTGCTCATTGGCTTGAGG
TGAATACTGAGCCAATGAAAGGTATTCCGAGATATCTGATACCTGCTTATTTCGATGTTA
TCGTTACTGGCGCCTATGAATTGCTTATCGAACATGCATTAAAGTTGATGCCAAGGTAAA
CTTTAAAATATTTACTTTTTTTCAATTACTAAATATTTTCATTACATTACAGTTTCATAA
GCAAAGGATCAGTTTTCCAACAATTACTCGCTTTAGCATCACTTCAATTTTTAGCACCTA
TCAAATCAGCTCGTTTACCAGATTTATCACCAAATATTAGTGACCCGAAACCTCCTACAC
TTTGTACTACTCTTGCTGCAGGTTTACCACATTTCTCAACTGGATATATGCGCTGTTGGG
GTCGAGACACTTTTATTGCATTGCGAGGATTGATGCTGCTCACAGGACGATACGACGAAG
CTCGATATATTATTATTGGTTTTGCTGGCACTCTTAGACATGGTTTAATTCCAAACTTAC
TTGACGGTGGCAAAAATTCTCGCTTCAATTGTCGTGATGCTGTTTGGTGGTGGTTGTATT
GTATTGAACAATATGTCACTGAAGCACCAAATGGAAAAGCAATTTTACGTGAAAAAGTGT
CACGCCTATTTCCTACTGATGACAGTGAAGCTAAACCAGCTGGAGAGTGTGATCAACTAT
TGTATGAAGTCATGCAAGAAGCATTAAATGTTCACTTCCAAGGCCTTGTCTATCGTGAAA
GAAATGCAGGAAAGCGAATCGATGAACATATGACAGATCATGGTTTCAACAATCAAATTG
GTATTCATCCAGAAACTGGATTTGGTAAATTAATCTGATTTCTAAAAATGACTTGATAAT
GTAATATAATTTTTAGTTTTTGGAGGTAATGACGCAAATTGTGGAACATGGATGGATAAA
ATGGGATCTTCACAGAAGGCTAATAACAAAGGTGTTCCATCTACTCCTCGTGACGGTTCT
GCAGTTGAATTGGTCGGATTGCAAGCAAGTGTATTGAAATTTTTGTCATCATGCTCTGAT
TATCCATACAAATCTTGAATTGACTAATGAAAATGGATCATTCTGTAGTGGATCGTGCAC
AACACAAGCATGGTCTGTTGCTACAATTCTTGAAACTCTCTATGATTTGGAAAATCATAA
ATAA
>g4375.t4 Gene=g4375 Length=156
MRCWGRDTFIALRGLMLLTGRYDEARYIIIGFAGTLRHGLIPNLLDGGKNSRFNCRDAVW
WWLYCIEQYVTEAPNGKAILREKVSRLFPTDDSEAKPAGECDQLLYEVMQEALNVHFQGL
VYRERNAGKRIDEHMTDHGFNNQIGIHPETGFGKLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4375.t4 | Gene3D | G3DSA:1.50.10.10 | - | 2 | 144 | 2.8E-5 |
| 2 | g4375.t4 | PANTHER | PTHR10569 | GLYCOGEN DEBRANCHING ENZYME | 1 | 152 | 1.6E-73 |
| 1 | g4375.t4 | Pfam | PF06202 | Amylo-alpha-1,6-glucosidase | 4 | 152 | 7.1E-39 |
| 3 | g4375.t4 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 2 | 139 | 6.6E-17 |
| 4 | g4375.t4 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 10 | - |
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:0004135 | amylo-alpha-1,6-glucosidase activity | MF |
| GO:0005980 | glycogen catabolic process | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0004134 | 4-alpha-glucanotransferase 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.
