Gene loci information

Transcript annotation

  • This transcript has been annotated as Cyclin-dependent kinase 2.

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 g2875 g2875.t2 isoform g2875.t2 20834088 20835654
chr_3 g2875 g2875.t2 exon g2875.t2.exon1 20834088 20834230
chr_3 g2875 g2875.t2 cds g2875.t2.CDS1 20834225 20834230
chr_3 g2875 g2875.t2 exon g2875.t2.exon2 20834454 20834542
chr_3 g2875 g2875.t2 cds g2875.t2.CDS2 20834454 20834542
chr_3 g2875 g2875.t2 exon g2875.t2.exon3 20834774 20835087
chr_3 g2875 g2875.t2 cds g2875.t2.CDS3 20834774 20835087
chr_3 g2875 g2875.t2 exon g2875.t2.exon4 20835152 20835654
chr_3 g2875 g2875.t2 cds g2875.t2.CDS4 20835152 20835654
chr_3 g2875 g2875.t2 TSS g2875.t2 NA NA
chr_3 g2875 g2875.t2 TTS g2875.t2 NA NA

Sequences

>g2875.t2 Gene=g2875 Length=1049
TCTTTACGATAGCATTTTTTATACAACTTGACCGTTTCTCTAATATTTTAAATTCGTTTT
TAAAGTCTTCACTCAATTACAAAAGTTATTTTATAATAAACAGTAGAAGAGCGGGAAAAT
GAATAACGATTAAAAATATGCAGATTGGAGAAGGGACTTATGGAATCGTTTATCGCGCAA
AACACAAACACAATGGCATTGATGTAGCATTGAAAAAGATTCGATTAGAAAGTGAAACTG
AAGGCATACCTTCTACAGCAATGCGAGAAATATCTTTACTGAAAAATATAAAGCATCACT
CTATCGTACAATTGTTTGATGTAATTGTAGCCGGTGGTTGTATATATATGGTATTTGAAT
ATCTTGACATGGATTTAAAGAAGTTGTTAGATCGTAAAAAGAGCATGCTGACGCCAAAAC
TCGTTAAGAGCTACATGCATCAATTACTCGAAGCCATAGATTATTGTCACATGAATAGAA
TTTTACATAGAGATTTAAAACCACAAAATTTGTTACTCGATTGCGCTGGTCACATCAAAT
TAGCTGATTTCGGTTTAGCCCGCACTTTCAATATTCCTCTTCGAGCATATACACATGAAG
TTGTAACACTATGGTATCGAGCTCCTGAAATTTTACTTGGATGTAAATTATATTCAACAG
GCGTTGATTTATGGAGTCTTGGATGCATATTTGCTGAAATGATGATGCTAAGACCAATGT
TTCAAGGTGATAGCGAGATTGATCAATTATATAGAATATTTAGACAATTTGGAACGCCTG
ATGAAACTACTTGGAAAAATATACGCCATTTGCCTGATTACAAGCCATCATTTCCAAAGT
GGGAAAGACAAGTGTTACCTCATCGCTTTTATTCAGACAACAATGCTGTAGAGTTGTTTC
TAGCAATGACAAAATACGATCCTGATCAGAGAATATCAGCTAAAGATGCATTAGCACATA
AATATTTTGATAATGTAGCCTTAATACCAGTAGAACTTCCTTTACCACCCGGCACACAGA
AATCAAATACTTCTTCATATCTTTTGTGA

>g2875.t2 Gene=g2875 Length=303
MQIGEGTYGIVYRAKHKHNGIDVALKKIRLESETEGIPSTAMREISLLKNIKHHSIVQLF
DVIVAGGCIYMVFEYLDMDLKKLLDRKKSMLTPKLVKSYMHQLLEAIDYCHMNRILHRDL
KPQNLLLDCAGHIKLADFGLARTFNIPLRAYTHEVVTLWYRAPEILLGCKLYSTGVDLWS
LGCIFAEMMMLRPMFQGDSEIDQLYRIFRQFGTPDETTWKNIRHLPDYKPSFPKWERQVL
PHRFYSDNNAVELFLAMTKYDPDQRISAKDALAHKYFDNVALIPVELPLPPGTQKSNTSS
YLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2875.t2 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 1 76 9.4E-28
6 g2875.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 80 282 1.7E-67
2 g2875.t2 PANTHER PTHR24056:SF371 CYCLIN-DEPENDENT KINASE A-2 2 282 1.1E-109
3 g2875.t2 PANTHER PTHR24056 CELL DIVISION PROTEIN KINASE 2 282 1.1E-109
1 g2875.t2 Pfam PF00069 Protein kinase domain 2 277 1.8E-72
8 g2875.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 55 -
9 g2875.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 76 -
7 g2875.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 77 303 -
11 g2875.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 3 26 -
10 g2875.t2 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 115 127 -
13 g2875.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 1 277 46.675
12 g2875.t2 SMART SM00220 serkin_6 1 277 2.5E-90
4 g2875.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 2 281 1.34E-94

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

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.

Raw TPM values