General information for g4641.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-dependent kinase 12.
Parent gene
- The parent gene g4641 is located on chr_2: 3814797..3816430 (- 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 | g4641 | g4641.t1 | TTS | g4641.t1 | 3814781 | 3814781 |
| chr_2 | g4641 | g4641.t1 | isoform | g4641.t1 | 3814797 | 3816430 |
| chr_2 | g4641 | g4641.t1 | exon | g4641.t1.exon1 | 3814797 | 3816085 |
| chr_2 | g4641 | g4641.t1 | cds | g4641.t1.CDS1 | 3814797 | 3816085 |
| chr_2 | g4641 | g4641.t1 | exon | g4641.t1.exon2 | 3816146 | 3816271 |
| chr_2 | g4641 | g4641.t1 | cds | g4641.t1.CDS2 | 3816146 | 3816271 |
| chr_2 | g4641 | g4641.t1 | exon | g4641.t1.exon3 | 3816328 | 3816430 |
| chr_2 | g4641 | g4641.t1 | cds | g4641.t1.CDS3 | 3816328 | 3816430 |
| chr_2 | g4641 | g4641.t1 | TSS | g4641.t1 | 3816479 | 3816479 |
Sequences
>g4641.t1 Gene=g4641 Length=1518
ATGGAATACAATTTATTTACGCAACAAATAGATAAAGAAAGTAGCAAATACTATAACAGG
GGTAGAATCAATTCATATTGTCAAACAACAGCTTCTGATAATCACTTTTATCCAAAATAT
TGTCAATATCATCAATACTGTCCTCCATTTTATGCATTAAACAACAACTATAGCTTTCAA
AATAGATGTCATTATAGACAATATAAACGACCAAGATTAAATGATGATCAAGAAGTCTAT
CATAAACCATATTTTTCTTTACTATATCCTCCTTTACCGCCGCCTCCGCCTCCTCCACCT
CTCCCAACGTATCCTTATCCAATTAAAACTGATCAATCAAACACTTGTGAAAAAGATCCA
AAAGTTGAAAGCAAAATTAATGATCAACTAAACACCAGTGATGAAATTTTGAAAGAAAAA
GCTACAAATTTAACTCAGGATAAGATAGAATCATCATCAGTTAAAAAACTTCGAAAATTT
AAAAGTAAAAATTCTAATCTACTGCAAAGACCATCAATCAGAAATAAAACAGTGATGCCC
AAACATGAATTGCAATTACGTTCATTTTCAAGTTTTAAAATAATTGAGACAATAGGGGAA
GGAACATATGGAAAAGTGTACAGAGCAAATGATATGACAACATCAAAAAATGTTGCATTA
AAACTAATTCGTATGGAATTTGAAACTGAAGGATTTCCAATAACAAGTTTACGTGAAGTG
ATAATTCTGAGAAAATTAAATCACGAAAACATTATTCAACTTCTTGATATCGTCTATGAT
ACAGATAAAAATTTAGCATTTCTTGTTTTTGAATACATGAACAATGATCTATCTGGTCTG
CTACAGAATCCTGAAATGATATTTAACGAGAAAAATATTTATCAAATAACACGTCAACTG
TTGAATGGTCTTCAATTTTCACACAGTCAAAATGTGGTGCATCGTGACTTGAAACCTGCA
AATATACTAATAAATAATAAAGGAGAAGTGAAAATTGCCGATTTTGGATTAGCTCGCGTT
TGGAAACCTGATAGACCATTCACAAATAAAGTTATTTCGCTCTATTACCGACCAATTGAA
TTATTAATGGGAGAAACTTATTATGATTTTTCATGTGATATGTGGTCACTTGGTTGTATT
ATTTGTGAGCTTTTTAAAGGGTCACCATTATTTCCTTTTCACACTGAAATAAATGTAGCA
AATGCAATTTTTTATCTATGTGGTTCACCCGACGTTAATCACTGGAAATTAACGAGCAAA
TCAAAAACTGTTTTGAAACCAAAATCAACACCAAGAATTCTCAAATCTACTCTTTCATCT
TACATCCCTTCACTTATTGTCGATTTAATTGATCAGATGTTAAAATTAAATCCGAAATCA
CGTATTACTGCAACAGAAGCTCTTAAATCACCATGGATATTGAAAATGGAAAAATCAAAT
CTTGAACCAATGAAATTACCACGATCTGATAGTTTTGAAATGAAAATGAGAAAAAAAAAC
ATCAAGGGAAATAAATAG
>g4641.t1 Gene=g4641 Length=505
MEYNLFTQQIDKESSKYYNRGRINSYCQTTASDNHFYPKYCQYHQYCPPFYALNNNYSFQ
NRCHYRQYKRPRLNDDQEVYHKPYFSLLYPPLPPPPPPPPLPTYPYPIKTDQSNTCEKDP
KVESKINDQLNTSDEILKEKATNLTQDKIESSSVKKLRKFKSKNSNLLQRPSIRNKTVMP
KHELQLRSFSSFKIIETIGEGTYGKVYRANDMTTSKNVALKLIRMEFETEGFPITSLREV
IILRKLNHENIIQLLDIVYDTDKNLAFLVFEYMNNDLSGLLQNPEMIFNEKNIYQITRQL
LNGLQFSHSQNVVHRDLKPANILINNKGEVKIADFGLARVWKPDRPFTNKVISLYYRPIE
LLMGETYYDFSCDMWSLGCIICELFKGSPLFPFHTEINVANAIFYLCGSPDVNHWKLTSK
SKTVLKPKSTPRILKSTLSSYIPSLIVDLIDQMLKLNPKSRITATEALKSPWILKMEKSN
LEPMKLPRSDSFEMKMRKKNIKGNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4641.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 175 | 274 | 5.7E-30 |
| 9 | g4641.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 275 | 505 | 4.5E-64 |
| 2 | g4641.t1 | PANTHER | PTHR24056:SF233 | CYCLIN-DEPENDENT KINASE 12 | 141 | 491 | 2.8E-104 |
| 3 | g4641.t1 | PANTHER | PTHR24056 | CELL DIVISION PROTEIN KINASE | 141 | 491 | 2.8E-104 |
| 1 | g4641.t1 | Pfam | PF00069 | Protein kinase domain | 192 | 473 | 8.3E-69 |
| 7 | g4641.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 198 | 221 | - |
| 6 | g4641.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 312 | 324 | - |
| 10 | g4641.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 192 | 473 | 45.813 |
| 5 | g4641.t1 | SMART | SM00220 | serkin_6 | 192 | 473 | 7.7E-87 |
| 4 | g4641.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 187 | 476 | 2.7E-90 |
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. There were no conditions that were differentially expressed