General information for g13652.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cyclin-H.
Parent gene
- The parent gene g13652 is located on chr_1: 31413360..31414195 (+ 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 | g13652 | g13652.t1 | TSS | g13652.t1 | 31413137 | 31413137 |
| chr_1 | g13652 | g13652.t1 | isoform | g13652.t1 | 31413171 | 31414195 |
| chr_1 | g13652 | g13652.t1 | exon | g13652.t1.exon1 | 31413171 | 31413287 |
| chr_1 | g13652 | g13652.t1 | cds | g13652.t1.CDS1 | 31413171 | 31413287 |
| chr_1 | g13652 | g13652.t1 | exon | g13652.t1.exon2 | 31413347 | 31414195 |
| chr_1 | g13652 | g13652.t1 | cds | g13652.t1.CDS2 | 31413347 | 31414195 |
| chr_1 | g13652 | g13652.t1 | TTS | g13652.t1 | NA | NA |
Sequences
>g13652.t1 Gene=g13652 Length=966
ATGTACGCTCAATCAAGTCAAAAGAGAAATTGGACATTTAATGCCGATGAGTTGATTAAT
TTAAGAGTAAAAAGTAATCAAGATTATATTGCTAGTCAAGGAACTGATGATATGGACAAT
AAGTCAATACAAGCTTTTTTCTTGAATCCATATGAAGAAAGCATATTATTGAGGCAATAT
GAGCTTCAACTTAGAGAGTTTTGTAAGCGCTTTGAACCACCAATGCCAAAATACACAATC
GGAACTGTTATTCAGTATTTTAAACGATTCTATCTTTATAACTCAACAATGAACTATCAT
CCTAAAGAAATATTAGCTACATGTGTTTATCTTTCTTGTAAAGTTGAAGAGTTTAATGTG
TCGATTCAACAGTTTGTTGCAAATGTCAAAGGCGATAGAAATAAAGCCATGGACATTATT
TTAAGCAATGAACTGTTGTTAATGCAAGAATTAAATTTCAATCTCACAATTCATAATTCA
TTTAGACCTGTCGAAGGCTTTTTAATTGATATAAAAACCAGATGTCATATGCAAAATCCA
GATAGATTGAGAAAAGGAATTGATGAATTTTTAGAAAAATCGTTTTTCACTGACGCATGT
CTCATCTATTCACCATCACAAATTGCTTTAGCTGCTGTGCTTCATGCTGCAAGTAAAGAA
CAAGAAAATCTCGATTCATATGTTACAGAGTGTCTTTTTGCTAATGCGGGACAAATGTTA
AAGCCTCTCATAGAAGCTGTTCGAAAGATTCGTTCGATGGTAAAAAATATTTCAGAGATG
CCTGACAAAAATGTAATTAAAGCACTTGAAAAGAAACTCGAAAGATGCAGAAATCAAGCA
AACAATCCTGATAGTGATGAATATAAGCAGAGGCAAATTAGAGAATTAAATGATGAAGAT
GACGACGGTTTATTACCACAGCAGGATGAAGATGTTTCTATGTTAAATGCTTCAAATTTT
GATTGA
>g13652.t1 Gene=g13652 Length=321
MYAQSSQKRNWTFNADELINLRVKSNQDYIASQGTDDMDNKSIQAFFLNPYEESILLRQY
ELQLREFCKRFEPPMPKYTIGTVIQYFKRFYLYNSTMNYHPKEILATCVYLSCKVEEFNV
SIQQFVANVKGDRNKAMDIILSNELLLMQELNFNLTIHNSFRPVEGFLIDIKTRCHMQNP
DRLRKGIDEFLEKSFFTDACLIYSPSQIALAAVLHAASKEQENLDSYVTECLFANAGQML
KPLIEAVRKIRSMVKNISEMPDKNVIKALEKKLERCRNQANNPDSDEYKQRQIRELNDED
DDGLLPQQDEDVSMLNASNFD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g13652.t1 | CDD | cd00043 | CYCLIN | 64 | 148 | 3.57122E-13 |
| 8 | g13652.t1 | Gene3D | G3DSA:1.10.472.10 | - | 11 | 277 | 3.2E-102 |
| 7 | g13652.t1 | Gene3D | G3DSA:1.10.472.10 | - | 160 | 259 | 3.2E-102 |
| 13 | g13652.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 277 | 321 | - |
| 14 | g13652.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 277 | 301 | - |
| 3 | g13652.t1 | PANTHER | PTHR10026:SF8 | CYCLIN-H | 1 | 308 | 1.2E-62 |
| 4 | g13652.t1 | PANTHER | PTHR10026 | CYCLIN | 1 | 308 | 1.2E-62 |
| 9 | g13652.t1 | PIRSF | PIRSF028758 | Cyclin_C_H_G | 2 | 63 | 78.0 |
| 10 | g13652.t1 | PIRSF | PIRSF028758 | Cyclin_C_H_G | 65 | 282 | 4.1E-23 |
| 1 | g13652.t1 | Pfam | PF00134 | Cyclin, N-terminal domain | 75 | 156 | 9.2E-10 |
| 2 | g13652.t1 | Pfam | PF16899 | Cyclin C-terminal domain | 160 | 255 | 2.2E-20 |
| 12 | g13652.t1 | SMART | SM00385 | cyclin_7 | 62 | 149 | 8.7E-13 |
| 5 | g13652.t1 | SUPERFAMILY | SSF47954 | Cyclin-like | 12 | 158 | 2.55E-30 |
| 6 | g13652.t1 | SUPERFAMILY | SSF47954 | Cyclin-like | 161 | 279 | 1.23E-29 |
| 15 | g13652.t1 | TIGRFAM | TIGR00569 | ccl1: cyclin ccl1 | 2 | 296 | 1.3E-105 |
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:0006357 | regulation of transcription by RNA polymerase II | BP |
| GO:0070985 | transcription factor TFIIK complex | CC |
| GO:0016538 | cyclin-dependent protein serine/threonine kinase regulator activity | MF |
| GO:0006351 | transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K06634 (cyclin H)
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.
