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.t15 TTS g1841.t15 13254002 13254002
chr_3 g1841 g1841.t15 isoform g1841.t15 13254268 13259900
chr_3 g1841 g1841.t15 exon g1841.t15.exon1 13254268 13254402
chr_3 g1841 g1841.t15 cds g1841.t15.CDS1 13254268 13254402
chr_3 g1841 g1841.t15 exon g1841.t15.exon2 13254475 13254633
chr_3 g1841 g1841.t15 cds g1841.t15.CDS2 13254475 13254633
chr_3 g1841 g1841.t15 exon g1841.t15.exon3 13257998 13258081
chr_3 g1841 g1841.t15 cds g1841.t15.CDS3 13257998 13258081
chr_3 g1841 g1841.t15 exon g1841.t15.exon4 13258760 13258857
chr_3 g1841 g1841.t15 cds g1841.t15.CDS4 13258760 13258857
chr_3 g1841 g1841.t15 exon g1841.t15.exon5 13258945 13259081
chr_3 g1841 g1841.t15 cds g1841.t15.CDS5 13258945 13259081
chr_3 g1841 g1841.t15 exon g1841.t15.exon6 13259167 13259257
chr_3 g1841 g1841.t15 cds g1841.t15.CDS6 13259167 13259257
chr_3 g1841 g1841.t15 exon g1841.t15.exon7 13259319 13259399
chr_3 g1841 g1841.t15 cds g1841.t15.CDS7 13259319 13259331
chr_3 g1841 g1841.t15 exon g1841.t15.exon8 13259461 13259657
chr_3 g1841 g1841.t15 exon g1841.t15.exon9 13259736 13259900
chr_3 g1841 g1841.t15 TSS g1841.t15 13259907 13259907

Sequences

>g1841.t15 Gene=g1841 Length=1147
TTTCATCGGTCGTACGTCGATGTATTGATAAGGAAACTGGTAAAGAGTATGCGGCAAAGA
TTATTGATTTGGGAGCATCGGACGTAAATGATTCACATCAGATGCTCGAAGCGACTCGTC
AAGAAATTAATATTTTGAGGCAAGTTATGGGTCATCCTTATATAATTGAATTGCAAGATG
TATTCGAATCTGATGCCTTTATTTTCCTTGTTTTTGAGCTATGTCGTCATGGTGAATTGT
TTGATTATCTTACATCTGTAGTTACATTATCTGAGAAAAAGACACGTTATATTATGAGAC
AAATTTTTGAAGGTGTTGATTATATTCATTCACGCAATATCGTCCATCGTGACCTGAAAC
CCTACTCCTCGATGACAATCTTAATGTCAAAATCACAGACTTTGGGTTTGCTCGTCACTT
AACCGATGGCATGAAACTTTATGACTTATGTGGCACACCTGGGTATCTTGCACCCGAAAC
TCTTAAATGTAACATGTTCGAAGACGCACCAGGCTATTCAAAAGAAGTCGATATGTGGGC
ATGTGGTGTTATTATGTTCACACTTCTTGTCGGTTGCCCTCCATTCTGGCATCGAAAGCA
GATGATAATGCTGCGAAATATCATGGAAGGAAAGTACAGTTTTATGTCACCCGAGTGGTC
AGATATTTCAGAGGATCCAAAAGATCTGATAAGAAAATGTCTTGTGGTTGATCCCGAGAA
GCGTATAACTGTTCGCGAAGCTTTGAAGCATCCATTCTTTAACACTGTACTTTTTGATCA
AGACATCGCACCACTAAAGCGATCTTTATCGGCGAAAACCAGAAGATATAGCCGTATCCA
TGATTTAGCTTTGATGCGTCGTCAAAGTCAATTTAATGCTAGGAAGAAATTTCAATTTGC
TATACTATGCGTACGAGCTATGATAAGAATACAAAGATTGCGCTACACACCTGAACCGCT
CGACATCGAAGAAGCCTTACGCGATCCATATCGTGTCAAAGTATTGCGTAAAGTCATCGA
TGCATGTGCTTTCCGCGTTTACGGCCATTGGGTCAAGAAAGGCGAGGGACAGAATCGTGC
TGCTCTCTTTGAAAACCAACCAAAAGTTGAACTTCATAACCTTTACATTCATCAGTTGCA
AAAATAA

>g1841.t15 Gene=g1841 Length=238
MKLYDLCGTPGYLAPETLKCNMFEDAPGYSKEVDMWACGVIMFTLLVGCPPFWHRKQMIM
LRNIMEGKYSFMSPEWSDISEDPKDLIRKCLVVDPEKRITVREALKHPFFNTVLFDQDIA
PLKRSLSAKTRRYSRIHDLALMRRQSQFNARKKFQFAILCVRAMIRIQRLRYTPEPLDIE
EALRDPYRVKVLRKVIDACAFRVYGHWVKKGEGQNRAALFENQPKVELHNLYIHQLQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g1841.t15 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 1 119 1.1E-39
2 g1841.t15 PANTHER PTHR44167 OVARIAN-SPECIFIC SERINE/THREONINE-PROTEIN KINASE LOK-RELATED 2 235 1.2E-114
3 g1841.t15 PANTHER PTHR44167:SF7 PHOSPHORYLASE KINASE CATALYTIC SUBUNIT GAMMA 1 2 235 1.2E-114
6 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 102 113 5.4E-29
9 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 146 161 5.4E-29
4 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 162 180 5.4E-29
7 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 181 195 5.4E-29
8 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 196 211 5.4E-29
5 g1841.t15 PRINTS PR01049 Phosphorylase kinase family signature 212 225 5.4E-29
1 g1841.t15 Pfam PF00069 Protein kinase domain 4 110 8.6E-26
13 g1841.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 32 -
14 g1841.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 33 53 -
12 g1841.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 54 238 -
17 g1841.t15 ProSiteProfiles PS50011 Protein kinase domain profile. 1 110 21.008
16 g1841.t15 SMART SM00220 serkin_6 1 110 9.8E-6
10 g1841.t15 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 3 126 1.13E-32
15 g1841.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 33 55 -

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.

Raw TPM values