General information for g3360.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 12.
Parent gene
- The parent gene g3360 is located on chr_3: 24837532..24838060 (- 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 | g3360 | g3360.t6 | TTS | g3360.t6 | 24836187 | 24836187 |
| chr_3 | g3360 | g3360.t6 | isoform | g3360.t6 | 24836270 | 24837965 |
| chr_3 | g3360 | g3360.t6 | exon | g3360.t6.exon1 | 24836270 | 24836560 |
| chr_3 | g3360 | g3360.t6 | cds | g3360.t6.CDS1 | 24836270 | 24836560 |
| chr_3 | g3360 | g3360.t6 | exon | g3360.t6.exon2 | 24836619 | 24836775 |
| chr_3 | g3360 | g3360.t6 | cds | g3360.t6.CDS2 | 24836619 | 24836775 |
| chr_3 | g3360 | g3360.t6 | exon | g3360.t6.exon3 | 24836839 | 24837053 |
| chr_3 | g3360 | g3360.t6 | cds | g3360.t6.CDS3 | 24836839 | 24837053 |
| chr_3 | g3360 | g3360.t6 | exon | g3360.t6.exon4 | 24837113 | 24837965 |
| chr_3 | g3360 | g3360.t6 | cds | g3360.t6.CDS4 | 24837113 | 24837814 |
| chr_3 | g3360 | g3360.t6 | TSS | g3360.t6 | 24838061 | 24838061 |
Sequences
>g3360.t6 Gene=g3360 Length=1516
ATGCCTGGTGAGTTTAATAATCGAAAAAATATTAAGTTTAGTTCACTTTCCTTCTAATAT
TCAGAGAAATCGAAGGAAAACTAAAATTTCTTTTAACCTCTTGCACAATGATTTGGCGAT
TTTTAATATTTTGATTTTGTTCACAGAAAAAATGGACACATTTAATCCAGCTATGCCTAC
TTATGAGGGTGGCAGGATCATTAAAATGGAAGTTGACTACAGTAGTACATGTGACGAAAC
AATTCCTCGCTGCAAAGAAATGGCAAAGAATGATTTGAAATTTAATGAAGCTCTAGAGAC
TTTGTTGTCATTGGAAAAGCAAGCTCGAATTGGCTCAGATATGATGTCAAGTGCTCGCAT
TTTAGTTGCTATTGTCCAGATTATATTCGATGCCAAAAAATGGGATTTATTAAATGAATA
TATTTCAATTTTGGTGAAGAAACGCTCACAATCTAAACAAGCAATTGTGAAGATGGTACA
AGAGTGCGTTACTTATGTTGATCAAACACCAGATAAGGAGACAAAAATTAAACTCATTGA
CACATTGAGAGCAGTTACAGAAGGAAAGATTTATGTTGAAATTGAACGAGCTCGTCTCAC
AAAAATTCTATCAGACATCAAAGAGGCTGATGGAGATATTCTCGGTGCAGCGACAATTAT
GGAGGCATTACAGATTGAAACATATGGTACTATGGATAAAAGAGAGAAAGTTGAGTTTAT
TCTTGAGCAAATGAGATTGTGCTTGGCTAAACACGATCTTGTTCGAACTCAAATCATTTC
AAAGAAAATCAATACAAAGTTCTTTAATGATCCAGAACAACAAGACTTGAAATTAAAGTA
TTATGAACTGATGATTCTCTTAGATCAAGATCAATCATATATTAAAACTGCTCGCTATTA
TCTCGCAATTGCCGATTCTGAATGCATAACTAATGATATTGAGAAGAGAAAACCTGTCTT
TGTTAATGCTGTTTTATATTGCATCCTCTCACCGTACGATAATGAGCAAGTCGATTTGAT
GAATAATTTATACAAGAATAAATTTTTGGAAGAGATTCCATTATACAAGGAATTATTAAA
ACTCTTTCTCTGTAAAGAACTCATTAATTTTGATGCTCTCAATCAAGTTTATGGAAAAGA
GTTGATGGGACTTAATGTCTTTAAAAAGGACACAGAACATGGAAAAAAGAGTTGGGAAGA
GTTGAAAAATCGTCTTATTGAACATAATGTTCGGATCATTGCAAGTTATTACACACGCAT
CCATATTTCAAGAATGTCAGAACTTTTGGATCTTGATGAATTACAAACTGAAGATGTTCT
CGCCAAGTTAGTAAATAATGGTACATTAAAGGTGAAAATTGATCGACCTGCAGGCATTAT
TTACTTCACACAGAAAAAGAGCCAATCAGAAGTCCTTAATGATTGGTCGAATGGTTTAAA
TGAGTTGATGGCATGTGTCAATAAGACTACACATCTTATTCAAAAAGAAGAGTGCTTGAA
TCAATTGTTAAAGTAA
>g3360.t6 Gene=g3360 Length=454
MDTFNPAMPTYEGGRIIKMEVDYSSTCDETIPRCKEMAKNDLKFNEALETLLSLEKQARI
GSDMMSSARILVAIVQIIFDAKKWDLLNEYISILVKKRSQSKQAIVKMVQECVTYVDQTP
DKETKIKLIDTLRAVTEGKIYVEIERARLTKILSDIKEADGDILGAATIMEALQIETYGT
MDKREKVEFILEQMRLCLAKHDLVRTQIISKKINTKFFNDPEQQDLKLKYYELMILLDQD
QSYIKTARYYLAIADSECITNDIEKRKPVFVNAVLYCILSPYDNEQVDLMNNLYKNKFLE
EIPLYKELLKLFLCKELINFDALNQVYGKELMGLNVFKKDTEHGKKSWEELKNRLIEHNV
RIIASYYTRIHISRMSELLDLDELQTEDVLAKLVNNGTLKVKIDRPAGIIYFTQKKSQSE
VLNDWSNGLNELMACVNKTTHLIQKEECLNQLLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3360.t6 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 341 | 421 | 0.000 |
| 3 | g3360.t6 | PANTHER | PTHR10855:SF1 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12 | 17 | 449 | 0.000 |
| 4 | g3360.t6 | PANTHER | PTHR10855 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12/COP9 SIGNALOSOME COMPLEX SUBUNIT 4 | 17 | 449 | 0.000 |
| 2 | g3360.t6 | Pfam | PF01399 | PCI domain | 305 | 413 | 0.000 |
| 1 | g3360.t6 | Pfam | PF18098 | 26S proteasome regulatory subunit RPN5 C-terminal domain | 419 | 450 | 0.000 |
| 9 | g3360.t6 | ProSiteProfiles | PS50250 | PCI domain profile. | 242 | 417 | 18.795 |
| 6 | g3360.t6 | SMART | SM00088 | PINT_4 | 346 | 432 | 0.000 |
| 7 | g3360.t6 | SMART | SM00753 | motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 | 346 | 432 | 0.000 |
| 5 | g3360.t6 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 344 | 422 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K03035 (26S proteasome regulatory subunit N5)
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.
