General information for g446.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 11.
Parent gene
- The parent gene g446 is located on chr_3: 3377665..3378538 (+ 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_3 | g446 | g446.t1 | TSS | g446.t1 | 3376534 | 3376534 |
| chr_3 | g446 | g446.t1 | isoform | g446.t1 | 3376641 | 3378106 |
| chr_3 | g446 | g446.t1 | exon | g446.t1.exon1 | 3376641 | 3377195 |
| chr_3 | g446 | g446.t1 | cds | g446.t1.CDS1 | 3376641 | 3377195 |
| chr_3 | g446 | g446.t1 | exon | g446.t1.exon2 | 3377336 | 3377605 |
| chr_3 | g446 | g446.t1 | cds | g446.t1.CDS2 | 3377336 | 3377605 |
| chr_3 | g446 | g446.t1 | exon | g446.t1.exon3 | 3377663 | 3378106 |
| chr_3 | g446 | g446.t1 | cds | g446.t1.CDS3 | 3377663 | 3378106 |
| chr_3 | g446 | g446.t1 | TTS | g446.t1 | 3378528 | 3378528 |
Sequences
>g446.t1 Gene=g446 Length=1269
ATGGCAGGAGCTACAAGTTTTGAGAGAACTCAGTCTATCACTTCAATTGGACGCGCAGAG
GAGAGTGAAAAGCTTTTAAATAAAATTCTCAAGGATCTCGAAATGAACGAGAATGATGAA
GAGCAAATTCGCATTAAAGAGGCCGCAATCTTAGAATTGGGCCAGTTTTACAAGACACAA
GGAAAGGCTAAGGAGCTTGCAGATCTAATTTCTAAATCCCGTCCGTTCCTTAATCTCATT
TCTAAAGCAAAGGCAGCAAAGTTAGTGCGTAGCCTTGTCGATCTATTTTTGGATCTTGAA
GCTGGAACTGGCATAGAAGTTCAATTGTGCAAAGACTGCATAGAATGGGCAAAACAAGAA
AAGAGAACTTTCTTACGTCAATCTTTAGAAGCAAGATTGATTGCTTTGTATTTCGACACA
AAGATGTACTCTGAAGCACTAACTCTCGGATCACAGCTCCTTCGTGAGTTAAAGAAAATG
GATGATAAGAACTTGCTAGTTGAAGTGCAGTTATTAGAAAGTAAAACCTATCATGCACTG
AGCAATTTATCCAAGGCTCGTGCTGCACTTACATCTGCAAGAACAACAGCAAATTCAATT
TATTGTCCTCCAAAAGTTCAAGCTGCTCTCGATTTGCAATCTGGTATTCTTCATGCTGCA
GATGAACGTGATTTTAAGACAGCCTTTTCTTATTTCTATGAAGCGTTTGAAGGATATGAC
AGTGTTGAAAATGTTAAAGCATTAACTGCACTCAAATACATGTTATTGTGCAAAATTATG
CTTGGTCAAAGTGATGATGTTAATCAAATTGTTAGTGGAAAATTGGCAATTTCATATTCT
GGAAAAGACATTGACGCAATGAAAGCTGTTGCTCAAGCATCACACAAGCGTTCACTTGCA
GACTTTCAACAAGCACTAAAGGAATTCAAATCACAACTCGAAGACGATGTAATAGTTCGT
GCACATTTAGATTCATTATATGATACAATGTTAGAGCAAAATCTTTGTCGCATCATTGAA
CCTTATTCTCGTGTTCAAGTGTCGTTTATTGCAAATTCTATCAAATTACCAATTCAGCAA
GTTGAAAAAAAATTGTCTCAAATGATTTTGGATAAAAAGTTTAGTGGTATCCTTGATCAA
GGAGATGGTGTATTAATTGTGTTTGAAGAAACACCAATTGATAAGACTTATGAAACTGCA
CTAGAGACAATTCATCATATGGGGAAAGTTGTAGATACATTGTATCAAAAGGCTAAGAAA
TTATCATAA
>g446.t1 Gene=g446 Length=422
MAGATSFERTQSITSIGRAEESEKLLNKILKDLEMNENDEEQIRIKEAAILELGQFYKTQ
GKAKELADLISKSRPFLNLISKAKAAKLVRSLVDLFLDLEAGTGIEVQLCKDCIEWAKQE
KRTFLRQSLEARLIALYFDTKMYSEALTLGSQLLRELKKMDDKNLLVEVQLLESKTYHAL
SNLSKARAALTSARTTANSIYCPPKVQAALDLQSGILHAADERDFKTAFSYFYEAFEGYD
SVENVKALTALKYMLLCKIMLGQSDDVNQIVSGKLAISYSGKDIDAMKAVAQASHKRSLA
DFQQALKEFKSQLEDDVIVRAHLDSLYDTMLEQNLCRIIEPYSRVQVSFIANSIKLPIQQ
VEKKLSQMILDKKFSGILDQGDGVLIVFEETPIDKTYETALETIHHMGKVVDTLYQKAKK
LS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g446.t1 | Coils | Coil | Coil | 19 | 39 | - |
| 10 | g446.t1 | Gene3D | G3DSA:1.25.40.570 | - | 29 | 390 | 1.5E-165 |
| 4 | g446.t1 | PANTHER | PTHR10678:SF6 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11A | 5 | 421 | 2.2E-196 |
| 5 | g446.t1 | PANTHER | PTHR10678 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 11/COP9 SIGNALOSOME COMPLEX SUBUNIT 2 | 5 | 421 | 2.2E-196 |
| 2 | g446.t1 | Pfam | PF18055 | 26S proteasome regulatory subunit RPN6 N-terminal domain | 18 | 129 | 6.3E-38 |
| 3 | g446.t1 | Pfam | PF01399 | PCI domain | 286 | 387 | 3.2E-20 |
| 1 | g446.t1 | Pfam | PF18503 | 26S proteasome subunit RPN6 C-terminal helix domain | 394 | 419 | 3.0E-15 |
| 12 | g446.t1 | ProSiteProfiles | PS50250 | PCI domain profile. | 224 | 392 | 23.975 |
| 8 | g446.t1 | SMART | SM00088 | PINT_4 | 321 | 404 | 7.9E-23 |
| 9 | g446.t1 | SMART | SM00753 | motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 | 321 | 404 | 7.9E-23 |
| 6 | g446.t1 | SUPERFAMILY | SSF48452 | TPR-like | 109 | 316 | 7.21E-5 |
| 7 | g446.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 315 | 397 | 2.45E-19 |
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:0043248 | proteasome assembly | BP |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K03036 (26S proteasome regulatory subunit N6)
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.
