General information for g10685.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g10685 is located on chr_1: 11322757..11323128 (- 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 | g10685 | g10685.t1 | TTS | g10685.t1 | 11322499 | 11322499 |
| chr_1 | g10685 | g10685.t1 | isoform | g10685.t1 | 11322757 | 11323128 |
| chr_1 | g10685 | g10685.t1 | exon | g10685.t1.exon1 | 11322757 | 11322822 |
| chr_1 | g10685 | g10685.t1 | cds | g10685.t1.CDS1 | 11322757 | 11322822 |
| chr_1 | g10685 | g10685.t1 | exon | g10685.t1.exon2 | 11322886 | 11322988 |
| chr_1 | g10685 | g10685.t1 | cds | g10685.t1.CDS2 | 11322886 | 11322988 |
| chr_1 | g10685 | g10685.t1 | exon | g10685.t1.exon3 | 11323067 | 11323128 |
| chr_1 | g10685 | g10685.t1 | cds | g10685.t1.CDS3 | 11323067 | 11323128 |
| chr_1 | g10685 | g10685.t1 | TSS | g10685.t1 | 11323230 | 11323230 |
Sequences
>g10685.t1 Gene=g10685 Length=231
ATGTCTTCGCAATCGCAGATATATTATAGTGACAAGTATGAAGACGAAGAATATGAATAT
CGACATGTTATGCTACCGAAAGATTTAGCACGTTTGGTTCCAAAGAGTCATCTAATGACA
GAGAATGAGTGGAGAGCAATAGGAGTTCAGCAATCTCGTGGATGGGTTCATTATATGATT
CATCATCCGGAGCCACATATTTTACTCTTTCGTCGAAAACTAAGCAAGTAA
>g10685.t1 Gene=g10685 Length=76
MSSQSQIYYSDKYEDEEYEYRHVMLPKDLARLVPKSHLMTENEWRAIGVQQSRGWVHYMI
HHPEPHILLFRRKLSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g10685.t1 | Gene3D | G3DSA:3.30.170.10 | Cell cycle regulatory proteins | 2 | 76 | 7.9E-40 |
| 2 | g10685.t1 | PANTHER | PTHR23415:SF29 | CYCLIN-DEPENDENT KINASES REGULATORY SUBUNIT | 5 | 75 | 8.9E-44 |
| 3 | g10685.t1 | PANTHER | PTHR23415 | CYCLIN-DEPENDENT KINASES REGULATORY SUBUNIT/60S RIBOSOME SUBUNIT BIOGENESIS PROTEIN NIP7 | 5 | 75 | 8.9E-44 |
| 5 | g10685.t1 | PRINTS | PR00296 | Cyclin-dependent kinase regulatory subunit signature | 6 | 20 | 2.6E-29 |
| 7 | g10685.t1 | PRINTS | PR00296 | Cyclin-dependent kinase regulatory subunit signature | 21 | 35 | 2.6E-29 |
| 6 | g10685.t1 | PRINTS | PR00296 | Cyclin-dependent kinase regulatory subunit signature | 43 | 57 | 2.6E-29 |
| 4 | g10685.t1 | PRINTS | PR00296 | Cyclin-dependent kinase regulatory subunit signature | 58 | 72 | 2.6E-29 |
| 1 | g10685.t1 | Pfam | PF01111 | Cyclin-dependent kinase regulatory subunit | 7 | 73 | 4.2E-37 |
| 11 | g10685.t1 | ProSitePatterns | PS00944 | Cyclin-dependent kinases regulatory subunits signature 1. | 9 | 27 | - |
| 10 | g10685.t1 | ProSitePatterns | PS00945 | Cyclin-dependent kinases regulatory subunits signature 2. | 61 | 71 | - |
| 9 | g10685.t1 | SMART | SM01084 | CKS_2 | 6 | 75 | 1.7E-47 |
| 8 | g10685.t1 | SUPERFAMILY | SSF55637 | Cell cycle regulatory proteins | 4 | 74 | 1.44E-36 |
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:0016538 | cyclin-dependent protein serine/threonine kinase regulator activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02219 (cyclin-dependent kinase regulatory subunit CKS1)
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.
