General information for g13411.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable phosphorylase b kinase regulatory subunit alpha.
Parent gene
- The parent gene g13411 is located on chr_1: 29900540..29902275 (+ 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 | g13411 | g13411.t2 | isoform | g13411.t2 | 29893072 | 29894185 |
| chr_1 | g13411 | g13411.t2 | exon | g13411.t2.exon1 | 29893072 | 29893074 |
| chr_1 | g13411 | g13411.t2 | exon | g13411.t2.exon2 | 29893143 | 29893678 |
| chr_1 | g13411 | g13411.t2 | cds | g13411.t2.CDS1 | 29893220 | 29893678 |
| chr_1 | g13411 | g13411.t2 | exon | g13411.t2.exon3 | 29893736 | 29893855 |
| chr_1 | g13411 | g13411.t2 | cds | g13411.t2.CDS2 | 29893736 | 29893855 |
| chr_1 | g13411 | g13411.t2 | exon | g13411.t2.exon4 | 29893928 | 29894185 |
| chr_1 | g13411 | g13411.t2 | cds | g13411.t2.CDS3 | 29893928 | 29894185 |
| chr_1 | g13411 | g13411.t2 | TSS | g13411.t2 | NA | NA |
| chr_1 | g13411 | g13411.t2 | TTS | g13411.t2 | NA | NA |
Sequences
>g13411.t2 Gene=g13411 Length=917
TTGGCGCCAGAGGTGGTCCAGCATCAGTCATTCACGTTTTAGCTGATGAAGCTCACAAGT
GTCAAGCTGTGTTGCAATCAATGCTGCCTCGTGAATCTAATAGTAAAGAATTGGATTCAG
GTCTCTTATCAATCATCGGCTTTCCAGCATTCGCTGTTGATGATCCATCACTTATTGAAG
AAACAAGAGATGCCATCGTTACACGTCTTCAAGGTCGTTATGGATGCAAAAGATTCTTAC
GTGATGGATATAAGACACCACGTGAAGATTGCTCTAGATTATATTACGAACGTTGGGAAT
TGAGAATGTTTGAAAATATTGAATGTGAATGGCCTCTTTTCTTTTGCTATCTCATATTGA
ATCATGCATTTCATGGCAATAAAGACGCAGTGTCAAACTACGTAGCAAAATTGGAAGATA
TCATGGTAAAAACTGAAGAGGGCATGAAACTTGTGCCAGAATTATATACTGTACCGAATG
ACTCGGTAAATGATGAATATAAAAACCCAGGCTCAAGTCAACGTTTGCCAATCGGAAGAA
CACCATTTTTATGGGCTCAATCTCTTTACATTTTGGGTAAATTGTTGCAAGAGGGATTTT
TGGCTGTTGGTGAGCTTGATCCTCTTAATAGACGTTTGGGTGCTCAAAAGAAACCAGATG
TGGTTGTACAAGTAGTTATTCTCGCAGATGATGATGAAATTCGAATGAAATTAGCCGATC
ATGGTTTTCATGTGCAAACTGTTGCTGAAGTTGCTCCAATTGAAGTTCAACCCGCACGTG
TATTGAGTCATTTGTACACCTATTTAGGTCGTAACAAGAAATTAGGATTAACTGGCCGTA
AATCGAGGGATGTTGGTATACTTAGTACCAGTAAACTCTATTCATTAAAAGACAGGATTT
TTGCATTCACACCGCAA
>g13411.t2 Gene=g13411 Length=279
MLPRESNSKELDSGLLSIIGFPAFAVDDPSLIEETRDAIVTRLQGRYGCKRFLRDGYKTP
REDCSRLYYERWELRMFENIECEWPLFFCYLILNHAFHGNKDAVSNYVAKLEDIMVKTEE
GMKLVPELYTVPNDSVNDEYKNPGSSQRLPIGRTPFLWAQSLYILGKLLQEGFLAVGELD
PLNRRLGAQKKPDVVVQVVILADDDEIRMKLADHGFHVQTVAEVAPIEVQPARVLSHLYT
YLGRNKKLGLTGRKSRDVGILSTSKLYSLKDRIFAFTPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13411.t2 | PANTHER | PTHR10749 | PHOSPHORYLASE B KINASE REGULATORY SUBUNIT | 1 | 279 | 0 |
| 3 | g13411.t2 | PANTHER | PTHR10749:SF7 | PHOSPHORYLASE B KINASE REGULATORY SUBUNIT ALPHA-RELATED | 1 | 279 | 0 |
| 1 | g13411.t2 | Pfam | PF00723 | Glycosyl hydrolases family 15 | 28 | 254 | 0 |
| 4 | g13411.t2 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 2 | 204 | 0 |
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:0005977 | glycogen metabolic process | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0005516 | calmodulin binding | 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.
