General information for g8356.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative CDK-activating kinase assembly factor MAT1.
Parent gene
- The parent gene g8356 is located on chr_2: 29945274..29949075 (+ 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_2 | g8356 | g8356.t2 | TSS | g8356.t2 | 29945212 | 29945212 |
| chr_2 | g8356 | g8356.t2 | isoform | g8356.t2 | 29945218 | 29946203 |
| chr_2 | g8356 | g8356.t2 | exon | g8356.t2.exon1 | 29945218 | 29946203 |
| chr_2 | g8356 | g8356.t2 | cds | g8356.t2.CDS1 | 29945525 | 29946202 |
| chr_2 | g8356 | g8356.t2 | TTS | g8356.t2 | 29946310 | 29946310 |
Sequences
>g8356.t2 Gene=g8356 Length=986
TATAATTTAGAAAACAAAACACTAAATTTCTGAGTTTTTGAAATAAATTAAAAATTATGG
AAGAAGATGGCTGTCCTCGTTGTAAGACAACTAAATATAGAAATCCATCACTCAAGCTGA
TGGTTAACATTTGTGGACATACACTTTGCGAGAATTGTGTTGAATTATTGTTTGTTAAAG
GTATTTTTAAAACTTTTTTTGCCGACATTAAATTTTAATATGAGGTTTCATTTTAGGCGC
AAACAGCTGTCCAGAATGCAACATCCCACTTCGGCGTAATAATTTTAGAGTCCAGCTCTT
TGATCCAATGGTCGAAAAAGAACTAGAAATTCGAAAACGGATTCTCAAAGATTATAATAA
GAAAGAAGAAGACTTTGCAACTCTTGAAGAATACAATGCATATTTAGAGGAGATTGAAGA
AATTATTTTTAATTTATGTAATAATATTGATATATTAGAGACAAATAAGAGAATCGAACA
GTATAAAAAAGAAAATCGAGAGATAACTATGAAAAATCGACAAAAAATCAGCAGGGAAGA
GTATGAACTTGAGATGTTACTTGAACAAGAGAAAGAAATTGCAGAAATTCGCAAGAAAGA
ATTGGAATCACTTGAAGAACAATCAAAGAAAAAGAAGACACTTGAAAAAGAGAAGTTAAT
TGATGAGTTGATGTTTAGTACTGAAAATGCTAAATCAATCGTTCAAACTTATGCAGAAAA
GATTGAGGAAGAGAAGAAAGAGCAAGAACTTGCGCCACCACCACCGAAACTCACAAAATT
CTCAACTGGCATTGGTTTCTCCTCAAATATGCAACAACAATATCTACCTATTCCTAAAAT
TGAAGAAGGTCCATTATATATTTATGAGGAGCCAGAATTTGAGATTCATGGACCTGCAGT
GCCACGATTTGAAGAATTAAGTGAAAAGAATTTCCTTAAACATATAAGACAAGAGAGTAA
TTTAGAGCGCGCTGGTGGATTTCAAA
>g8356.t2 Gene=g8356 Length=226
MVEKELEIRKRILKDYNKKEEDFATLEEYNAYLEEIEEIIFNLCNNIDILETNKRIEQYK
KENREITMKNRQKISREEYELEMLLEQEKEIAEIRKKELESLEEQSKKKKTLEKEKLIDE
LMFSTENAKSIVQTYAEKIEEEKKEQELAPPPPKLTKFSTGIGFSSNMQQQYLPIPKIEE
GPLYIYEEPEFEIHGPAVPRFEELSEKNFLKHIRQESNLERAGGFQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g8356.t2 | Coils | Coil | Coil | 33 | 69 | - |
| 6 | g8356.t2 | Coils | Coil | Coil | 82 | 115 | - |
| 4 | g8356.t2 | Coils | Coil | Coil | 125 | 145 | - |
| 2 | g8356.t2 | PANTHER | PTHR12683 | CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1 | 2 | 226 | 9.6E-43 |
| 3 | g8356.t2 | PANTHER | PTHR12683:SF13 | CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1 | 2 | 226 | 9.6E-43 |
| 1 | g8356.t2 | Pfam | PF06391 | CDK-activating kinase assembly factor MAT1 | 1 | 187 | 1.7E-52 |
| 7 | g8356.t2 | TIGRFAM | TIGR00570 | cdk7: CDK-activating kinase assembly factor MAT1 | 1 | 226 | 4.0E-66 |
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:0005675 | transcription factor TFIIH holo complex | CC |
| GO:0045737 | positive regulation of cyclin-dependent protein serine/threonine kinase activity | BP |
| GO:0061575 | cyclin-dependent protein serine/threonine kinase activator activity | MF |
| GO:0006289 | nucleotide-excision repair | 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.
