General information for g1841.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphorylase b kinase gamma catalytic chain, liver/testis isoform.
Parent gene
- The parent gene g1841 is located on chr_3: 13260701..13261369 (- 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_3 | g1841 | g1841.t13 | TTS | g1841.t13 | 13254002 | 13254002 |
| chr_3 | g1841 | g1841.t13 | isoform | g1841.t13 | 13254268 | 13259648 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon1 | 13254268 | 13254402 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS1 | 13254268 | 13254402 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon2 | 13254475 | 13254633 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS2 | 13254475 | 13254633 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon3 | 13258760 | 13258857 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS3 | 13258760 | 13258857 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon4 | 13258945 | 13259081 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS4 | 13258945 | 13259081 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon5 | 13259167 | 13259257 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS5 | 13259167 | 13259257 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon6 | 13259319 | 13259406 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS6 | 13259319 | 13259406 |
| chr_3 | g1841 | g1841.t13 | exon | g1841.t13.exon7 | 13259461 | 13259648 |
| chr_3 | g1841 | g1841.t13 | cds | g1841.t13.CDS7 | 13259461 | 13259529 |
| chr_3 | g1841 | g1841.t13 | TSS | g1841.t13 | 13259907 | 13259907 |
Sequences
>g1841.t13 Gene=g1841 Length=896
AAGATGTATTCGAATCTGATGCCTTTATTTTCCTTGTTTTTGAGCTATGTCGTCATGGTG
AATTGTTTGATTATCTTACATCTGTAGTTACATTATCTGAGAAAAAGACACGTTATATTA
TGAGACAAATTTTTGAAGGTGTTGATTATATTCATTCACGCAATATCGTCCATCGTGACC
TGAAACCCGAAAATATACTCCTCGATGACAATCTTAATGTCAAAATCACAGACTTTGGGT
TTGCTCGTCACTTAACCGATGGCATGAAACTTTATGACTTATGTGGCACACCTGGGTATC
TTGCACCCGAAACTCTTAAATGTAACATGTTCGAAGACGCACCAGGCTATTCAAAAGAAG
TCGATATGTGGGCATGTGGTGTTATTATGTTCACACTTCTTGTCGGTTGCCCTCCATTCT
GGCATCGAAAGCAGATGATAATGCTGCGAAATATCATGGAAGGAAAGTACAGTTTTATGT
CACCCGAGTGGTCAGATATTTCAGAGGATCCAAAAGATCTGATAAGAAAATGTCTTGTGG
TTGATCCCGAGAAGCGTATAACTGTTCGCGAAGCTTTGAAGCATCCATTCTTTAACACTG
TAATGCGTCGTCAAAGTCAATTTAATGCTAGGAAGAAATTTCAATTTGCTATACTATGCG
TACGAGCTATGATAAGAATACAAAGATTGCGCTACACACCTGAACCGCTCGACATCGAAG
AAGCCTTACGCGATCCATATCGTGTCAAAGTATTGCGTAAAGTCATCGATGCATGTGCTT
TCCGCGTTTACGGCCATTGGGTCAAGAAAGGCGAGGGACAGAATCGTGCTGCTCTCTTTG
AAAACCAACCAAAAGTTGAACTTCATAACCTTTACATTCATCAGTTGCAAAAATAA
>g1841.t13 Gene=g1841 Length=258
MRQIFEGVDYIHSRNIVHRDLKPENILLDDNLNVKITDFGFARHLTDGMKLYDLCGTPGY
LAPETLKCNMFEDAPGYSKEVDMWACGVIMFTLLVGCPPFWHRKQMIMLRNIMEGKYSFM
SPEWSDISEDPKDLIRKCLVVDPEKRITVREALKHPFFNTVMRRQSQFNARKKFQFAILC
VRAMIRIQRLRYTPEPLDIEEALRDPYRVKVLRKVIDACAFRVYGHWVKKGEGQNRAALF
ENQPKVELHNLYIHQLQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g1841.t13 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 1 | 168 | 5.6E-68 |
| 2 | g1841.t13 | PANTHER | PTHR44167 | OVARIAN-SPECIFIC SERINE/THREONINE-PROTEIN KINASE LOK-RELATED | 1 | 255 | 6.9E-148 |
| 3 | g1841.t13 | PANTHER | PTHR44167:SF7 | PHOSPHORYLASE KINASE CATALYTIC SUBUNIT GAMMA 1 | 1 | 255 | 6.9E-148 |
| 5 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 150 | 161 | 7.9E-29 |
| 9 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 166 | 181 | 7.9E-29 |
| 8 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 182 | 200 | 7.9E-29 |
| 6 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 201 | 215 | 7.9E-29 |
| 4 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 216 | 231 | 7.9E-29 |
| 7 | g1841.t13 | PRINTS | PR01049 | Phosphorylase kinase family signature | 232 | 245 | 7.9E-29 |
| 1 | g1841.t13 | Pfam | PF00069 | Protein kinase domain | 1 | 158 | 3.5E-52 |
| 13 | g1841.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 80 | - |
| 14 | g1841.t13 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 81 | 101 | - |
| 12 | g1841.t13 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 102 | 258 | - |
| 15 | g1841.t13 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 16 | 28 | - |
| 17 | g1841.t13 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 158 | 38.859 |
| 16 | g1841.t13 | SMART | SM00220 | serkin_6 | 1 | 158 | 1.5E-28 |
| 10 | g1841.t13 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 1 | 166 | 1.46E-60 |
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:0005978 | glycogen biosynthetic process | BP |
| GO:0005524 | ATP binding | MF |
| GO:0004689 | phosphorylase kinase activity | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
| GO:0005516 | calmodulin binding | MF |
| GO:0005964 | phosphorylase kinase complex | CC |
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.
