General information for g2216.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Casein kinase I isoform gamma-3.
Parent gene
- The parent gene g2216 is located on chr_3: 16048844..16052164 (- 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 | g2216 | g2216.t3 | isoform | g2216.t3 | 16040661 | 16048844 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon1 | 16040661 | 16040734 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS1 | 16040661 | 16040734 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon2 | 16040797 | 16040845 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS2 | 16040797 | 16040845 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon3 | 16041587 | 16041735 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS3 | 16041587 | 16041735 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon4 | 16042769 | 16042966 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS4 | 16042769 | 16042966 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon5 | 16043119 | 16043229 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS5 | 16043119 | 16043229 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon6 | 16045793 | 16045962 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS6 | 16045793 | 16045962 |
| chr_3 | g2216 | g2216.t3 | exon | g2216.t3.exon7 | 16048798 | 16048844 |
| chr_3 | g2216 | g2216.t3 | cds | g2216.t3.CDS7 | 16048798 | 16048844 |
| chr_3 | g2216 | g2216.t3 | TSS | g2216.t3 | NA | NA |
| chr_3 | g2216 | g2216.t3 | TTS | g2216.t3 | NA | NA |
Sequences
>g2216.t3 Gene=g2216 Length=798
ATGCAACGAAAAGATCAACGCGACATGTCTCGACAAGCAGCAGCAAGTGGTGCAAGTGGC
TCTGGAGCTCCAGGAGCTGCACAACGTGGTGGATCCTCTAACAATATGTATTCAGCACGT
CATTCAGTTAGCTCATCAAGCGGTGTTCTAATGGTCGGACCAAATTTTCGCGTTGGAAAG
AAAATTGGTTGTGGTAATTTTGGTGAATTGAGATTGGGAAAGAATCTATACAACAATGAA
CATGTAGCAATAAAAATGGAGCCAATGAAATCAAAAGCGCCCCAGTTACATTTAGAGTAT
AGATTTTATAAATTATTAGGATCACACGAGGGAATAGCGCGAGTTTACCATTTGGGAACT
TGCGGTGGACGTTACAATGCAATGGTTTTAGAATTATTGGGACCATCACTTGAAGATTTG
TTTACAAGTTGTGGACGAAAATTCTCATTGAAGACTGTTCTCATGATTGCTAAACAACTC
GTAAGTGCTGAAAATTTCATACCAACAACATTTTATCAAAAAAGAAATGGATTACCCGCA
ATATATTACTTTGGTCCTTGCGGTAAATACAATGCACTCGTCATGGAACTACTTGGTCCG
TCACTTGAAGATTTATTTGATATGTGTGGCCGTCGTTTTGGGTTGAAAACTGTTATCATG
ATAGCAATACAATTACTTCATAGAATCGAGTATGTGCATAGTCGTCATTTAATTTATAGA
GATGTAAAACCGGAAAATTTTTTGATCGGTAGAAGTTCAAATAAACGTGATAAAATAATA
CATATAATAGGTGAGTGA
>g2216.t3 Gene=g2216 Length=265
MQRKDQRDMSRQAAASGASGSGAPGAAQRGGSSNNMYSARHSVSSSSGVLMVGPNFRVGK
KIGCGNFGELRLGKNLYNNEHVAIKMEPMKSKAPQLHLEYRFYKLLGSHEGIARVYHLGT
CGGRYNAMVLELLGPSLEDLFTSCGRKFSLKTVLMIAKQLVSAENFIPTTFYQKRNGLPA
IYYFGPCGKYNALVMELLGPSLEDLFDMCGRRFGLKTVIMIAIQLLHRIEYVHSRHLIYR
DVKPENFLIGRSSNKRDKIIHIIGE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2216.t3 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 46 | 133 | 8.2E-36 |
| 9 | g2216.t3 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 164 | 264 | 2.8E-30 |
| 13 | g2216.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 33 | - |
| 2 | g2216.t3 | PANTHER | PTHR11909:SF151 | CASEIN KINASE I ISOFORM GAMMA-3 | 36 | 166 | 8.3E-108 |
| 4 | g2216.t3 | PANTHER | PTHR11909 | CASEIN KINASE-RELATED | 36 | 166 | 8.3E-108 |
| 3 | g2216.t3 | PANTHER | PTHR11909:SF151 | CASEIN KINASE I ISOFORM GAMMA-3 | 175 | 263 | 8.3E-108 |
| 5 | g2216.t3 | PANTHER | PTHR11909 | CASEIN KINASE-RELATED | 175 | 263 | 8.3E-108 |
| 1 | g2216.t3 | Pfam | PF00069 | Protein kinase domain | 190 | 253 | 1.5E-8 |
| 11 | g2216.t3 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 62 | 85 | - |
| 10 | g2216.t3 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 237 | 249 | - |
| 14 | g2216.t3 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 56 | 265 | 18.718 |
| 12 | g2216.t3 | SMART | SM00220 | serkin_6 | 56 | 260 | 4.8E-4 |
| 7 | g2216.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 52 | 166 | 2.39E-25 |
| 6 | g2216.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 176 | 263 | 5.63E-22 |
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.
