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.t45 isoform g1841.t45 13259326 13261369
chr_3 g1841 g1841.t45 exon g1841.t45.exon1 13259326 13259406
chr_3 g1841 g1841.t45 cds g1841.t45.CDS1 13259326 13259406
chr_3 g1841 g1841.t45 exon g1841.t45.exon2 13259461 13259657
chr_3 g1841 g1841.t45 cds g1841.t45.CDS2 13259461 13259657
chr_3 g1841 g1841.t45 exon g1841.t45.exon3 13259736 13259905
chr_3 g1841 g1841.t45 cds g1841.t45.CDS3 13259736 13259905
chr_3 g1841 g1841.t45 exon g1841.t45.exon4 13260718 13260886
chr_3 g1841 g1841.t45 cds g1841.t45.CDS4 13260718 13260812
chr_3 g1841 g1841.t45 exon g1841.t45.exon5 13261177 13261369
chr_3 g1841 g1841.t45 TSS g1841.t45 13261336 13261336
chr_3 g1841 g1841.t45 TTS g1841.t45 NA NA

Sequences

>g1841.t45 Gene=g1841 Length=810
AGCTTGAAAAAAATTTTCTCATTATTTATTTTCACTTTTACGTCGGAATTGTGAAAAGTT
AGATCATAAGTATTGCTTGAGTAGTTAGAATATAAAGACAATTAAATGAAAATAGTGGAG
AATTGTTGAAAAAGTAGCATATAAGAGTGAAAGTTTATTTTTTCATTTTGTACAATTTTC
TCTCGTCGGCCAAGTAAAAAGGAAGATCTTTTGGGATAGTTTGTAATCATTTGAGTAGCC
ATTAAGTCTTTAAGAAAACAATCAACAATGGCAAAAGATGAGCCAGATGATGATACACTT
CCTGACAAAGACGCAGCGAAAGGTTTCTACGCAAAATATGAACCAAAAGAGGTTCTTGGA
CGTGGCATTTCATCGGTCGTACGTCGATGTATTGATAAGGAAACTGGTAAAGAGTATGCG
GCAAAGATTATTGATTTGGGAGCATCGGACGTAAATGATTCACATCAGATGCTCGAAGCG
ACTCGTCAAGAAATTAATATTTTGAGGCAAGTTATGGGTCATCCTTATATAATTGAATTG
CAAGATGTATTCGAATCTGATGCCTTTATTTTCCTTGTTTTTGAGCTATGTCGTCATGGT
GAATTGTTTGATTATCTTACATCTGTAGTTACATTATCTGAGAAAAAGACACGTTATATT
ATGAGACAAATTTTTGAAGGTGTTGATTATATTCATTCACGCAATATCGTCCATCGTGAC
CTGAAACCCGAAAATATACTCCTCGATGACAATCTTAATGTCAAAATCACAGACTTTGGG
TTTGCTCGTCACTTAACCGATGGCATGAAA

>g1841.t45 Gene=g1841 Length=181
MAKDEPDDDTLPDKDAAKGFYAKYEPKEVLGRGISSVVRRCIDKETGKEYAAKIIDLGAS
DVNDSHQMLEATRQEINILRQVMGHPYIIELQDVFESDAFIFLVFELCRHGELFDYLTSV
VTLSEKKTRYIMRQIFEGVDYIHSRNIVHRDLKPENILLDDNLNVKITDFGFARHLTDGM
K

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1841.t45 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 6 107 7.1E-35
9 g1841.t45 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 108 181 3.4E-28
2 g1841.t45 PANTHER PTHR44167 OVARIAN-SPECIFIC SERINE/THREONINE-PROTEIN KINASE LOK-RELATED 1 181 7.3E-96
3 g1841.t45 PANTHER PTHR44167:SF7 PHOSPHORYLASE KINASE CATALYTIC SUBUNIT GAMMA 1 1 181 7.3E-96
1 g1841.t45 Pfam PF00069 Protein kinase domain 24 179 1.8E-47
7 g1841.t45 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 30 53 -
6 g1841.t45 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 147 159 -
10 g1841.t45 ProSiteProfiles PS50011 Protein kinase domain profile. 24 181 34.93
5 g1841.t45 SMART SM00220 serkin_6 24 181 1.1E-24
4 g1841.t45 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 20 179 5.13E-54

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:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

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.

Raw TPM values