General information for g8600.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-dependent kinase 4.
Parent gene
- The parent gene g8600 is located on chr_2: 31675886..31678260 (+ 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_2 | g8600 | g8600.t1 | TSS | g8600.t1 | 31675465 | 31675465 |
| chr_2 | g8600 | g8600.t1 | isoform | g8600.t1 | 31675570 | 31678260 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon1 | 31675570 | 31675615 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS1 | 31675570 | 31675615 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon2 | 31675882 | 31676047 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS2 | 31675882 | 31676047 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon3 | 31676114 | 31676255 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS3 | 31676114 | 31676255 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon4 | 31676323 | 31676433 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS4 | 31676323 | 31676433 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon5 | 31676489 | 31676621 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS5 | 31676489 | 31676621 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon6 | 31676697 | 31676781 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS6 | 31676697 | 31676781 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon7 | 31676841 | 31676973 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS7 | 31676841 | 31676973 |
| chr_2 | g8600 | g8600.t1 | exon | g8600.t1.exon8 | 31678177 | 31678260 |
| chr_2 | g8600 | g8600.t1 | cds | g8600.t1.CDS8 | 31678177 | 31678260 |
| chr_2 | g8600 | g8600.t1 | TTS | g8600.t1 | 31678439 | 31678439 |
Sequences
>g8600.t1 Gene=g8600 Length=900
ATGGAAGATTTCGGTGATTTTAGAGATTTGGATGTTATTGGAAATGGAGCATATGGTGTC
GTTTACAGAGCACGCGATCAGACAAATGGTTCATACGTAGCACTTAAAAAAATTCTCATT
AGTATTACTAGTGATGGAATTCCTATGACAACATTGCGTGAAATTTCTTTGCTCAAAAAT
CTTGATTCCTACAATCATCCACATATTGTAAAACTTTTAGATGTTATTCATCGACGAGCT
GATCGTGATAATTCATTGGAACTTTATCTTGTGTTTGAGTACTTAGAACGTGATTTGGCT
GATTATATGTCACATCTTCCACCATCAGCTGTCATTCCTACACATCAAATTCAAAGATTA
TCAAGAGAATTGTTAAATGGAATTGACTTTTTACACTCCCACCGCATTATTCATAGAGAT
CTAAAACCATCAAATTTGTTAATTTCAAGTCAAGGAACATTAAAAATAGCCGATTTTGGT
TTGTCAAAATCATATGATTTCGATATGCGACTCACATCAATTGTTGTTACGCTTTGGTAT
CGATCGCCAGAAGTTTTATTGTCTCAATCATATAATTCGGCCGTTGACATCTGGTCTGCT
GGCTGTATCATTGCTGAAATGTATGCCAAAAAAGCATTGTTTCCTGGCAGTAGTGAAGCT
AATCAGTTGGGGAAAATATTTGAATTAACTGGCAAACCATTACTTGAAGATTTTCCTAAT
TGTTCTGTTGATTTGGATCAATTTTTAATGACTATTCCATGTGAACCAAGACAGCTTATT
CCAAGACTTTGTGATTATGCTAATGATTTGTTAAAGAAAATGTTAAACTTATTACCTCAA
AATAGACTATCAGCAAGTGCCTGCCTTCTTCATCCATATTTTCATCAAGAACTTCTATGA
>g8600.t1 Gene=g8600 Length=299
MEDFGDFRDLDVIGNGAYGVVYRARDQTNGSYVALKKILISITSDGIPMTTLREISLLKN
LDSYNHPHIVKLLDVIHRRADRDNSLELYLVFEYLERDLADYMSHLPPSAVIPTHQIQRL
SRELLNGIDFLHSHRIIHRDLKPSNLLISSQGTLKIADFGLSKSYDFDMRLTSIVVTLWY
RSPEVLLSQSYNSAVDIWSAGCIIAEMYAKKALFPGSSEANQLGKIFELTGKPLLEDFPN
CSVDLDQFLMTIPCEPRQLIPRLCDYANDLLKKMLNLLPQNRLSASACLLHPYFHQELL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g8600.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 4 | 95 | 2.4E-29 |
| 6 | g8600.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 96 | 298 | 3.3E-59 |
| 2 | g8600.t1 | PANTHER | PTHR24056:SF129 | CYCLIN-DEPENDENT KINASE 4 | 12 | 296 | 1.8E-90 |
| 3 | g8600.t1 | PANTHER | PTHR24056 | CELL DIVISION PROTEIN KINASE | 12 | 296 | 1.8E-90 |
| 7 | g8600.t1 | PIRSF | PIRSF000654 | ILK | 2 | 258 | 2.0E-24 |
| 1 | g8600.t1 | Pfam | PF00069 | Protein kinase domain | 8 | 294 | 1.3E-67 |
| 9 | g8600.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 13 | 36 | - |
| 8 | g8600.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 136 | 148 | - |
| 11 | g8600.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 7 | 294 | 46.93 |
| 10 | g8600.t1 | SMART | SM00220 | serkin_6 | 7 | 294 | 2.8E-91 |
| 4 | g8600.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 4 | 296 | 4.18E-88 |
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 transcript has been annotated with K02089 (cyclin-dependent kinase 4)
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.
