General information for g2875.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-dependent kinase 2.
Parent gene
- The parent gene g2875 is located on chr_3: 20835156..20835654 (+ 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 | g2875 | g2875.t4 | isoform | g2875.t4 | 20834302 | 20835654 |
| chr_3 | g2875 | g2875.t4 | exon | g2875.t4.exon1 | 20834302 | 20835087 |
| chr_3 | g2875 | g2875.t4 | cds | g2875.t4.CDS1 | 20834688 | 20835087 |
| chr_3 | g2875 | g2875.t4 | exon | g2875.t4.exon2 | 20835152 | 20835654 |
| chr_3 | g2875 | g2875.t4 | cds | g2875.t4.CDS2 | 20835152 | 20835654 |
| chr_3 | g2875 | g2875.t4 | TSS | g2875.t4 | NA | NA |
| chr_3 | g2875 | g2875.t4 | TTS | g2875.t4 | NA | NA |
Sequences
>g2875.t4 Gene=g2875 Length=1289
ATGAATGATCTTAATCATCTTCCGTCGTTCCAGAAAATTGAAAAAGTATGAAAAATAGTG
TAGCTAGTGTAGAATTCTTAATAAAAATTCAAAATTGTGATTGTTTACATGAAATTTTAT
TTTCAATAAATTTCTTCATTCATTTCATACAGATTGGAGAAGGGACTTATGGAATCGTTT
ATCGCGCAAAACACAAACACAATGGCATTGATGTAGCATTGAAAAAGATTCGATTAGAAA
GGTAAAATCAGAAAAGAAATATTCCAGACATTTTTCAATTTAGTAAGAAGAAGAATTTTT
CGGCATAGTGAACGAAACTGAATTATGTGAGTGATTTACGTTATTATAAAGTTCTCGTAG
CACCACAGGATTCAGCTTTGCTTGCCATGAAACTCATCAAGAAAACAATTGAAAAAAAAA
TTATAAACTGGTTCAAATATGAAGCCTTACAAAAAGTGTTTTCCAATTACAGTGAAACTG
AAGGCATACCTTCTACAGCAATGCGAGAAATATCTTTACTGAAAAATATAAAGCATCACT
CTATCGTACAATTGTTTGATGTAATTGTAGCCGGTGGTTGTATATATATGGTATTTGAAT
ATCTTGACATGGATTTAAAGAAGTTGTTAGATCGTAAAAAGAGCATGCTGACGCCAAAAC
TCGTTAAGAGCTACATGCATCAATTACTCGAAGCCATAGATTATTGTCACATGAATAGAA
TTTTACATAGAGATTTAAAACCACAAAATTTGTTACTCGATTGCGCTGGTCACATCAAAT
TAGCTGATTTCGGTTTAGCCCGCACTTTCAATATTCCTCTTCGAGCATATACACATGAAG
TTGTAACACTATGGTATCGAGCTCCTGAAATTTTACTTGGATGTAAATTATATTCAACAG
GCGTTGATTTATGGAGTCTTGGATGCATATTTGCTGAAATGATGATGCTAAGACCAATGT
TTCAAGGTGATAGCGAGATTGATCAATTATATAGAATATTTAGACAATTTGGAACGCCTG
ATGAAACTACTTGGAAAAATATACGCCATTTGCCTGATTACAAGCCATCATTTCCAAAGT
GGGAAAGACAAGTGTTACCTCATCGCTTTTATTCAGACAACAATGCTGTAGAGTTGTTTC
TAGCAATGACAAAATACGATCCTGATCAGAGAATATCAGCTAAAGATGCATTAGCACATA
AATATTTTGATAATGTAGCCTTAATACCAGTAGAACTTCCTTTACCACCCGGCACACAGA
AATCAAATACTTCTTCATATCTTTTGTGA
>g2875.t4 Gene=g2875 Length=300
MKLIKKTIEKKIINWFKYEALQKVFSNYSETEGIPSTAMREISLLKNIKHHSIVQLFDVI
VAGGCIYMVFEYLDMDLKKLLDRKKSMLTPKLVKSYMHQLLEAIDYCHMNRILHRDLKPQ
NLLLDCAGHIKLADFGLARTFNIPLRAYTHEVVTLWYRAPEILLGCKLYSTGVDLWSLGC
IFAEMMMLRPMFQGDSEIDQLYRIFRQFGTPDETTWKNIRHLPDYKPSFPKWERQVLPHR
FYSDNNAVELFLAMTKYDPDQRISAKDALAHKYFDNVALIPVELPLPPGTQKSNTSSYLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2875.t4 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 16 | 74 | 6.2E-16 |
| 6 | g2875.t4 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 77 | 279 | 1.7E-67 |
| 2 | g2875.t4 | PANTHER | PTHR24056:SF371 | CYCLIN-DEPENDENT KINASE A-2 | 30 | 279 | 1.0E-99 |
| 3 | g2875.t4 | PANTHER | PTHR24056 | CELL DIVISION PROTEIN KINASE | 30 | 279 | 1.0E-99 |
| 1 | g2875.t4 | Pfam | PF00069 | Protein kinase domain | 23 | 274 | 1.5E-61 |
| 8 | g2875.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 52 | - |
| 9 | g2875.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 73 | - |
| 7 | g2875.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 74 | 300 | - |
| 10 | g2875.t4 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 112 | 124 | - |
| 12 | g2875.t4 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 274 | 40.442 |
| 11 | g2875.t4 | SMART | SM00220 | serkin_6 | 6 | 274 | 2.6E-68 |
| 4 | g2875.t4 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 23 | 278 | 5.53E-82 |
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.
