General information for g13573.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-dependent kinase 5 activator 1.
Parent gene
- The parent gene g13573 is located on chr_1: 30987666..30990540 (+ 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 | g13573 | g13573.t1 | TSS | g13573.t1 | 30979363 | 30979363 |
| chr_1 | g13573 | g13573.t1 | isoform | g13573.t1 | 30979832 | 30990540 |
| chr_1 | g13573 | g13573.t1 | exon | g13573.t1.exon1 | 30979832 | 30980689 |
| chr_1 | g13573 | g13573.t1 | cds | g13573.t1.CDS1 | 30979832 | 30980689 |
| chr_1 | g13573 | g13573.t1 | exon | g13573.t1.exon2 | 30987666 | 30987803 |
| chr_1 | g13573 | g13573.t1 | cds | g13573.t1.CDS2 | 30987666 | 30987803 |
| chr_1 | g13573 | g13573.t1 | exon | g13573.t1.exon3 | 30990001 | 30990206 |
| chr_1 | g13573 | g13573.t1 | cds | g13573.t1.CDS3 | 30990001 | 30990206 |
| chr_1 | g13573 | g13573.t1 | exon | g13573.t1.exon4 | 30990264 | 30990540 |
| chr_1 | g13573 | g13573.t1 | cds | g13573.t1.CDS4 | 30990264 | 30990540 |
| chr_1 | g13573 | g13573.t1 | TTS | g13573.t1 | NA | NA |
Sequences
>g13573.t1 Gene=g13573 Length=1479
ATGGGAACAGTGTTGAGTTTCAGTCCAAGGGAAAGTCATCCCATTTATTCAACGCATCAT
CGTGGTAGTGGCACAATGTCGACATCAAGTTCTGCTGATTTTTCACTAAACAATTATGCA
TATGAGCAAATGAATAATGTGAAAAATCGTGAAAATTGTACGACAAAAACAAGCATTATA
AGCAACAACAATGGTAGCAGCTTAGTTCTTTTTGGTTCAACCAATTCGAATATTATGAAC
AACAACCTCAATACGACGACGACAACAAATACTACAAATGGCACAGCAATGGAAGAACGT
CAGTCTGATAGTGCGCGAATTCTCTCGGAAAAGAATGCGATCGAGAAGAATCTAAAGAAG
CACTCACTGTTCATAAATGCATTGTCGTGGAAGCGATTGTCGGCGTCGCATGGTAAAAAG
AAGCTGGAAAGTTATAACACAAAGAACAAGTCAGCGAATCTTACAACCAGTTCATTTCGT
CCTCCTGCGCTCACTGACACCGTACATCCAATGGTGGTTGCAAACGAGAAGAATAAAAAT
TACCAACAACAACAGATTCAGTTTGCGAGCAATAACAATCTCAATATTAGCAACAATAAC
AATCTGAATATTAATCACATAAAGGACTCATCGCAGTCCAACATTTATTTCTCCCCTGGC
CCAAAGAGCCTCCTTGCCTTGGACCTTCAAAATTCTAACAATGCCAACTTGCAGCATCAT
CAAAATATTGAAAAATTGGGACCAAAAATTCCCTTACAGCTTCCACTGTCACTACAATCG
AACGTGATGCATTCTCAAGCGCAACAACAGCAACAACAAATACATTTTCGTCCGGGACCG
AGAAAAACAATTATTCAGGCATCAACGTCCGAGTTGCTAAAATGTTTTGGAATTTTTCTA
CGAGAACGCTGCCATAAGTTAAGAGATTTTCAAGCCGGTGATGCTATTATGTGGTTGAGA
GCCGTCGATAGAAGTCTGCTGCTGCAAGGATGGCAGGATGTTGCATTCATCAACCCAGCC
AATGTTGTCTTCTTATATATGTTGGTTCGTGATATGGTCGATGGAGAGGAAGCTAGTGAG
CAAGAATTGCAAGCATCTGTATTAACATGCTTGTATTTGTCTTATTCATACATGGGAAAT
GAAATTAGTTACCCTTTAAAGCCCTTCCTGGTTGAAGAGTCTAAGGATAAATTTTGGGAT
CGATGTCTTCTATTGTTGAATCGTTTGAGTTCAAGTATGCTGCGCATAAATGCTGAACCG
GGATTTTTCACAGAAATTTTTACTGAATTGAAAGCCTGTGGCCTCAATAATGGCTTTACG
CCCATTAGTCCGGTTTCGCGCAATTCTATTGATATTCTCAACAATAACTTCAGCAATATA
CACATCAATTCGCCCACAACAAATACTACCAGCACATTTCGACCAAACTGCTTTGATAAC
AACCTCAATCATGAGCCAAATTTAGCAATTTCGGGCTAA
>g13573.t1 Gene=g13573 Length=492
MGTVLSFSPRESHPIYSTHHRGSGTMSTSSSADFSLNNYAYEQMNNVKNRENCTTKTSII
SNNNGSSLVLFGSTNSNIMNNNLNTTTTTNTTNGTAMEERQSDSARILSEKNAIEKNLKK
HSLFINALSWKRLSASHGKKKLESYNTKNKSANLTTSSFRPPALTDTVHPMVVANEKNKN
YQQQQIQFASNNNLNISNNNNLNINHIKDSSQSNIYFSPGPKSLLALDLQNSNNANLQHH
QNIEKLGPKIPLQLPLSLQSNVMHSQAQQQQQQIHFRPGPRKTIIQASTSELLKCFGIFL
RERCHKLRDFQAGDAIMWLRAVDRSLLLQGWQDVAFINPANVVFLYMLVRDMVDGEEASE
QELQASVLTCLYLSYSYMGNEISYPLKPFLVEESKDKFWDRCLLLLNRLSSSMLRINAEP
GFFTEIFTELKACGLNNGFTPISPVSRNSIDILNNNFSNIHINSPTTNTTSTFRPNCFDN
NLNHEPNLAISG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13573.t1 | Gene3D | G3DSA:1.10.472.10 | - | 286 | 433 | 1.5E-72 |
| 4 | g13573.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - |
| 2 | g13573.t1 | PANTHER | PTHR23401 | CYCLIN DEPENDANT KINASE-5 ACTIVATOR | 1 | 436 | 2.0E-86 |
| 6 | g13573.t1 | PIRSF | PIRSF009324 | Cdk5_activator | 1 | 444 | 1.2E-116 |
| 1 | g13573.t1 | Pfam | PF03261 | Cyclin-dependent kinase 5 activator protein | 81 | 434 | 5.7E-134 |
| 3 | g13573.t1 | SUPERFAMILY | SSF47954 | Cyclin-like | 288 | 434 | 6.46E-71 |
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:0016533 | protein kinase 5 complex | CC |
| GO:0061575 | cyclin-dependent protein serine/threonine kinase activator activity | MF |
KEGG
Orthology
- This transcript has been annotated with K11716 (cyclin-dependent kinase 5 activator 1)
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. There were no conditions that were differentially expressed