General information for g10661.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-dependent kinase 9.
Parent gene
- The parent gene g10661 is located on chr_1: 11233961..11236548 (+ 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_1 | g10661 | g10661.t1 | isoform | g10661.t1 | 11232365 | 11233961 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon1 | 11232365 | 11232497 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS1 | 11232365 | 11232497 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon2 | 11232558 | 11232627 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS2 | 11232558 | 11232627 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon3 | 11232695 | 11232776 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS3 | 11232695 | 11232776 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon4 | 11232835 | 11232990 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS4 | 11232835 | 11232990 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon5 | 11233047 | 11233211 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS5 | 11233047 | 11233211 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon6 | 11233274 | 11233424 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS6 | 11233274 | 11233424 |
| chr_1 | g10661 | g10661.t1 | exon | g10661.t1.exon7 | 11233483 | 11233961 |
| chr_1 | g10661 | g10661.t1 | cds | g10661.t1.CDS7 | 11233483 | 11233961 |
| chr_1 | g10661 | g10661.t1 | TSS | g10661.t1 | NA | NA |
| chr_1 | g10661 | g10661.t1 | TTS | g10661.t1 | NA | NA |
Sequences
>g10661.t1 Gene=g10661 Length=1236
ATGTCCCAAAATCAGAATCAAATCCAATCATCATCATCTTCATCGAGACAGGAATCGCAA
CAGCAAGTCTCACATCCACAAATGAGTAGTGGATATGCTACAATTGAACAGCGTTTGAAA
TATATTTCTGACTATAACTTTCCATATTGTGATGAATCAGCAAAATATGAAAAAGTCGCA
AAAATCGGTCAAGGAACTTTTGGAGAAGTTTTCAAGGCGAGATCGAAAAGTGATAACAAA
TTTGTAGCTATGAAACGTGTTTTAATGGAAAATGAAAAAGAAGGATTTCCCATCACAGCT
CTAAGAGAAATTAGGATATTACAACTTCTCAAACATGAAAATGTAGTAAATTTGATAGAA
ATCGTCCGGACTAAAGCAAATAAGAACAACAAATATAAATCAATCTTTTATTTAGTATTT
GATTTTTGCGAGCATGATTTAGCTGGACTTTTATCAAATGTCAACGTTAAATTTAGTTTA
GGAGAAATTAAAAAAGTAATGAAACAACTACTAAATGGATTATATTATATTCATTCAAAC
AAAATTCTGCATAGAGATATGAAAGCAGCTAATGTGCTGATAACTAAAACAGGAATACTC
AAATTGGCCGATTTTGGGTTAGCTCGAGCGATAAGTATATCGAAAAACGGTCAACCTAAT
AGATACACAAATCGTGTAGTGACTTTGTGGTATCGACCTCCAGAGCTACTTTTAGGCGAT
AGAAATTATGGCCCTCCTGTTGACATGTGGGGAGCAGGATGCATTATGGCTGAAATGTGG
ACAAGATCTCCTATAATGCAAGGCTCCACAGAGCAACAACAACTTACTCTTTGCGCTCAA
CTATGTGGTTCATTCACAACTGATGTATGGCCTGGTCTTGATAAATTAGAACTATATCAT
AAAATGGAACTTCCACAAAATCATAAAAGAAAAGTTAAAGAACGTTTGCGACCTTATGTT
AAGGATCAAGCAGCCGTTGACCTTCTTGATCAATTGTTAATTTTAAATCCTGAAAAAAGA
ATAAATGCTGACGATGCATTAATGCATGATTTTTTTTGGATAGATCCGATGCCAGCTGAC
TTGACAAAAATGTTGTCTCAGCTGACACAAAGTAATTTCGAATTCCTTGCACCCCCGCGA
AGATCGAATCAAATGATGCATCGTTATCAGCAACAAGCTGCAAATCAAATTCAACAAAGA
CCTCAAGATAATAGTTATCAAGATCGTGTCTATTAA
>g10661.t1 Gene=g10661 Length=411
MSQNQNQIQSSSSSSRQESQQQVSHPQMSSGYATIEQRLKYISDYNFPYCDESAKYEKVA
KIGQGTFGEVFKARSKSDNKFVAMKRVLMENEKEGFPITALREIRILQLLKHENVVNLIE
IVRTKANKNNKYKSIFYLVFDFCEHDLAGLLSNVNVKFSLGEIKKVMKQLLNGLYYIHSN
KILHRDMKAANVLITKTGILKLADFGLARAISISKNGQPNRYTNRVVTLWYRPPELLLGD
RNYGPPVDMWGAGCIMAEMWTRSPIMQGSTEQQQLTLCAQLCGSFTTDVWPGLDKLELYH
KMELPQNHKRKVKERLRPYVKDQAAVDLLDQLLILNPEKRINADDALMHDFFWIDPMPAD
LTKMLSQLTQSNFEFLAPPRRSNQMMHRYQQQAANQIQQRPQDNSYQDRVY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10661.t1 | CDD | cd07865 | STKc_CDK9 | 44 | 352 | 0.0 |
| 5 | g10661.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 39 | 144 | 7.2E-39 |
| 6 | g10661.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 145 | 367 | 2.2E-69 |
| 12 | g10661.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - |
| 11 | g10661.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 391 | 411 | - |
| 2 | g10661.t1 | PANTHER | PTHR24056:SF414 | CYCLIN-DEPENDENT KINASE 9 | 32 | 388 | 1.6E-186 |
| 3 | g10661.t1 | PANTHER | PTHR24056 | CELL DIVISION PROTEIN KINASE | 32 | 388 | 1.6E-186 |
| 1 | g10661.t1 | Pfam | PF00069 | Protein kinase domain | 56 | 352 | 3.1E-70 |
| 9 | g10661.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 62 | 85 | - |
| 8 | g10661.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 182 | 194 | - |
| 13 | g10661.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 56 | 352 | 43.933 |
| 10 | g10661.t1 | SMART | SM00220 | serkin_6 | 56 | 352 | 7.8E-91 |
| 4 | g10661.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 50 | 353 | 9.58E-98 |
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 K02211 (cyclin-dependent kinase 9)
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.
