Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphorylase b kinase gamma catalytic chain, liver/testis isoform.

Parent gene

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.t33 TTS g1841.t33 13254002 13254002
chr_3 g1841 g1841.t33 isoform g1841.t33 13254268 13261300
chr_3 g1841 g1841.t33 exon g1841.t33.exon1 13254268 13254402
chr_3 g1841 g1841.t33 exon g1841.t33.exon2 13254475 13254633
chr_3 g1841 g1841.t33 cds g1841.t33.CDS1 13254611 13254633
chr_3 g1841 g1841.t33 exon g1841.t33.exon3 13258756 13258857
chr_3 g1841 g1841.t33 cds g1841.t33.CDS2 13258756 13258857
chr_3 g1841 g1841.t33 exon g1841.t33.exon4 13258945 13259081
chr_3 g1841 g1841.t33 cds g1841.t33.CDS3 13258945 13259081
chr_3 g1841 g1841.t33 exon g1841.t33.exon5 13259167 13259257
chr_3 g1841 g1841.t33 cds g1841.t33.CDS4 13259167 13259257
chr_3 g1841 g1841.t33 exon g1841.t33.exon6 13259319 13259406
chr_3 g1841 g1841.t33 cds g1841.t33.CDS5 13259319 13259406
chr_3 g1841 g1841.t33 exon g1841.t33.exon7 13259461 13259657
chr_3 g1841 g1841.t33 cds g1841.t33.CDS6 13259461 13259657
chr_3 g1841 g1841.t33 exon g1841.t33.exon8 13259736 13259905
chr_3 g1841 g1841.t33 cds g1841.t33.CDS7 13259736 13259905
chr_3 g1841 g1841.t33 exon g1841.t33.exon9 13260718 13260886
chr_3 g1841 g1841.t33 cds g1841.t33.CDS8 13260718 13260812
chr_3 g1841 g1841.t33 exon g1841.t33.exon10 13261177 13261300
chr_3 g1841 g1841.t33 TSS g1841.t33 13261336 13261336

Sequences

>g1841.t33 Gene=g1841 Length=1372
GTATTGCTTGAGTAGTTAGAATATAAAGACAATTAAATGAAAATAGTGGAGAATTGTTGA
AAAAGTAGCATATAAGAGTGAAAGTTTATTTTTTCATTTTGTACAATTTTCTCTCGTCGG
CCAAGTAAAAAGGAAGATCTTTTGGGATAGTTTGTAATCATTTGAGTAGCCATTAAGTCT
TTAAGAAAACAATCAACAATGGCAAAAGATGAGCCAGATGATGATACACTTCCTGACAAA
GACGCAGCGAAAGGTTTCTACGCAAAATATGAACCAAAAGAGGTTCTTGGACGTGGCATT
TCATCGGTCGTACGTCGATGTATTGATAAGGAAACTGGTAAAGAGTATGCGGCAAAGATT
ATTGATTTGGGAGCATCGGACGTAAATGATTCACATCAGATGCTCGAAGCGACTCGTCAA
GAAATTAATATTTTGAGGCAAGTTATGGGTCATCCTTATATAATTGAATTGCAAGATGTA
TTCGAATCTGATGCCTTTATTTTCCTTGTTTTTGAGCTATGTCGTCATGGTGAATTGTTT
GATTATCTTACATCTGTAGTTACATTATCTGAGAAAAAGACACGTTATATTATGAGACAA
ATTTTTGAAGGTGTTGATTATATTCATTCACGCAATATCGTCCATCGTGACCTGAAACCC
GAAAATATACTCCTCGATGACAATCTTAATGTCAAAATCACAGACTTTGGGTTTGCTCGT
CACTTAACCGATGGCATGAAACTTTATGACTTATGTGGCACACCTGGGTATCTTGCACCC
GAAACTCTTAAATGTAACATGTTCGAAGACGCACCAGGCTATTCAAAAGAAGTCGATATG
TGGGCATGTGGTGTTATTATGTTCACACTTCTTGTCGGTTGCCCTCCATTCTGGCATCGA
AAGCAGATGATAATGCTGCGAAATATCATGGAAGGAAAGTACAGTTTTATGTCACCCGAG
TGGTCAGATATTTCAGAGGATCCAAAAGATCTGATAAGAAAATGTCTTGTGGTTGATCCC
GAGAAGCGTATAACTGTTCGCGAAGCTTTGAAGCATCCATTCTTTAACACTGTAGTAAAT
GCGTCGTCAAAGTCAATTTAATGCTAGGAAGAAATTTCAATTTGCTATACTATGCGTACG
AGCTATGATAAGAATACAAAGATTGCGCTACACACCTGAACCGCTCGACATCGAAGAAGC
CTTACGCGATCCATATCGTGTCAAAGTATTGCGTAAAGTCATCGATGCATGTGCTTTCCG
CGTTTACGGCCATTGGGTCAAGAAAGGCGAGGGACAGAATCGTGCTGCTCTCTTTGAAAA
CCAACCAAAAGTTGAACTTCATAACCTTTACATTCATCAGTTGCAAAAATAA

>g1841.t33 Gene=g1841 Length=300
MAKDEPDDDTLPDKDAAKGFYAKYEPKEVLGRGISSVVRRCIDKETGKEYAAKIIDLGAS
DVNDSHQMLEATRQEINILRQVMGHPYIIELQDVFESDAFIFLVFELCRHGELFDYLTSV
VTLSEKKTRYIMRQIFEGVDYIHSRNIVHRDLKPENILLDDNLNVKITDFGFARHLTDGM
KLYDLCGTPGYLAPETLKCNMFEDAPGYSKEVDMWACGVIMFTLLVGCPPFWHRKQMIML
RNIMEGKYSFMSPEWSDISEDPKDLIRKCLVVDPEKRITVREALKHPFFNTVVNASSKSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g1841.t33 CDD cd14093 STKc_PhKG 20 289 0.0
7 g1841.t33 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 6 107 2.3E-34
8 g1841.t33 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 108 298 1.9E-75
2 g1841.t33 PANTHER PTHR44167 OVARIAN-SPECIFIC SERINE/THREONINE-PROTEIN KINASE LOK-RELATED 1 295 1.9E-176
3 g1841.t33 PANTHER PTHR44167:SF7 PHOSPHORYLASE KINASE CATALYTIC SUBUNIT GAMMA 1 1 295 1.9E-176
4 g1841.t33 PRINTS PR01049 Phosphorylase kinase family signature 118 139 1.7E-8
5 g1841.t33 PRINTS PR01049 Phosphorylase kinase family signature 281 292 1.7E-8
1 g1841.t33 Pfam PF00069 Protein kinase domain 24 289 7.3E-80
10 g1841.t33 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 211 -
11 g1841.t33 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 212 232 -
9 g1841.t33 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 233 300 -
15 g1841.t33 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 30 53 -
14 g1841.t33 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 147 159 -
16 g1841.t33 ProSiteProfiles PS50011 Protein kinase domain profile. 24 289 53.474
13 g1841.t33 SMART SM00220 serkin_6 24 289 4.3E-113
6 g1841.t33 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 20 293 1.09E-91

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

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.

Raw TPM values