General information for g8356.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t3 | TSS | g8356.t3 | 29945212 | 29945212 |
| chr_2 | g8356 | g8356.t3 | isoform | g8356.t3 | 29945274 | 29946445 |
| chr_2 | g8356 | g8356.t3 | exon | g8356.t3.exon1 | 29945274 | 29945397 |
| chr_2 | g8356 | g8356.t3 | cds | g8356.t3.CDS1 | 29945274 | 29945397 |
| chr_2 | g8356 | g8356.t3 | exon | g8356.t3.exon2 | 29945454 | 29946445 |
| chr_2 | g8356 | g8356.t3 | cds | g8356.t3.CDS2 | 29945454 | 29946262 |
| chr_2 | g8356 | g8356.t3 | TTS | g8356.t3 | 29946748 | 29946748 |
Sequences
>g8356.t3 Gene=g8356 Length=1116
ATGGAAGAAGATGGCTGTCCTCGTTGTAAGACAACTAAATATAGAAATCCATCACTCAAG
CTGATGGTTAACATTTGTGGACATACACTTTGCGAGAATTGTGTTGAATTATTGTTTGTT
AAAGGCGCAAACAGCTGTCCAGAATGCAACATCCCACTTCGGCGTAATAATTTTAGAGTC
CAGCTCTTTGATCCAATGGTCGAAAAAGAACTAGAAATTCGAAAACGGATTCTCAAAGAT
TATAATAAGAAAGAAGAAGACTTTGCAACTCTTGAAGAATACAATGCATATTTAGAGGAG
ATTGAAGAAATTATTTTTAATTTATGTAATAATATTGATATATTAGAGACAAATAAGAGA
ATCGAACAGTATAAAAAAGAAAATCGAGAGATAACTATGAAAAATCGACAAAAAATCAGC
AGGGAAGAGTATGAACTTGAGATGTTACTTGAACAAGAGAAAGAAATTGCAGAAATTCGC
AAGAAAGAATTGGAATCACTTGAAGAACAATCAAAGAAAAAGAAGACACTTGAAAAAGAG
AAGTTAATTGATGAGTTGATGTTTAGTACTGAAAATGCTAAATCAATCGTTCAAACTTAT
GCAGAAAAGATTGAGGAAGAGAAGAAAGAGCAAGAACTTGCGCCACCACCACCGAAACTC
ACAAAATTCTCAACTGGCATTGGTTTCTCCTCAAATATGCAACAACAATATCTACCTATT
CCTAAAATTGAAGAAGGTCCATTATATATTTATGAGGAGCCAGAATTTGAGATTCATGGA
CCTGCAGTGCCACGATTTGAAGAATTAAGTGAAAAGAATTTCCTTAAACATATAAGACAA
GAGAGTAATTTAGAGCGCGCTGGTGGATTTCAAAGTAAAATTGCATGCTGGCGTGCTCTA
ACTGAAGCAATGCAAGGCCTTTATCCATTTTAAGATAATTTATATTTTTTTGTCTGTTAC
AATAAACCGTTGTTAAAAATTCAAATTTAAATCTTTGAACTAATTTTGAACCAAAATTTT
TATTCAACACTAAAATAACTTTTCGGTCTTTTATTTTGTTTTAAGTTTATTTAAAGAAAT
AACTAATAATTACATAAAAAAGCTTTTGATATAAGT
>g8356.t3 Gene=g8356 Length=310
MEEDGCPRCKTTKYRNPSLKLMVNICGHTLCENCVELLFVKGANSCPECNIPLRRNNFRV
QLFDPMVEKELEIRKRILKDYNKKEEDFATLEEYNAYLEEIEEIIFNLCNNIDILETNKR
IEQYKKENREITMKNRQKISREEYELEMLLEQEKEIAEIRKKELESLEEQSKKKKTLEKE
KLIDELMFSTENAKSIVQTYAEKIEEEKKEQELAPPPPKLTKFSTGIGFSSNMQQQYLPI
PKIEEGPLYIYEEPEFEIHGPAVPRFEELSEKNFLKHIRQESNLERAGGFQSKIACWRAL
TEAMQGLYPF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8356.t3 | CDD | cd16517 | RING-HC_MAT1 | 6 | 54 | 3.6949E-31 |
| 8 | g8356.t3 | Coils | Coil | Coil | 98 | 134 | - |
| 9 | g8356.t3 | Coils | Coil | Coil | 147 | 180 | - |
| 7 | g8356.t3 | Coils | Coil | Coil | 190 | 210 | - |
| 6 | g8356.t3 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 1 | 65 | 6.3E-23 |
| 3 | g8356.t3 | PANTHER | PTHR12683 | CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1 | 1 | 309 | 3.2E-84 |
| 4 | g8356.t3 | PANTHER | PTHR12683:SF13 | CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1 | 1 | 309 | 3.2E-84 |
| 1 | g8356.t3 | Pfam | PF17121 | Zinc finger, C3HC4 type (RING finger) | 3 | 48 | 6.7E-13 |
| 2 | g8356.t3 | Pfam | PF06391 | CDK-activating kinase assembly factor MAT1 | 53 | 252 | 9.1E-60 |
| 11 | g8356.t3 | ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 26 | 35 | - |
| 13 | g8356.t3 | ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 6 | 50 | 10.35 |
| 5 | g8356.t3 | SUPERFAMILY | SSF57850 | RING/U-box | 2 | 60 | 8.37E-11 |
| 12 | g8356.t3 | TIGRFAM | TIGR00570 | cdk7: CDK-activating kinase assembly factor MAT1 | 1 | 308 | 6.1E-122 |
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 transcript has been annotated with K10842 (CDK-activating kinase assembly factor MAT1)
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.
