General information for g3360.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t3 | TTS | g3360.t3 | 24836187 | 24836187 |
| chr_3 | g3360 | g3360.t3 | isoform | g3360.t3 | 24836270 | 24837050 |
| chr_3 | g3360 | g3360.t3 | exon | g3360.t3.exon1 | 24836270 | 24836560 |
| chr_3 | g3360 | g3360.t3 | cds | g3360.t3.CDS1 | 24836270 | 24836560 |
| chr_3 | g3360 | g3360.t3 | exon | g3360.t3.exon2 | 24836619 | 24836775 |
| chr_3 | g3360 | g3360.t3 | cds | g3360.t3.CDS2 | 24836619 | 24836775 |
| chr_3 | g3360 | g3360.t3 | exon | g3360.t3.exon3 | 24836839 | 24837050 |
| chr_3 | g3360 | g3360.t3 | cds | g3360.t3.CDS3 | 24836839 | 24836888 |
| chr_3 | g3360 | g3360.t3 | TSS | g3360.t3 | 24838061 | 24838061 |
Sequences
>g3360.t3 Gene=g3360 Length=660
CTCTTAGATCAAGATCAATCATATATTAAAACTGCTCGCTATTATCTCGCAATTGCCGAT
TCTGAATGCATAACTAATGATATTGAGAAGAGAAAACCTGTCTTTGTTAATGCTGTTTTA
TATTGCATCCTCTCACCGTACGATAATGAGCAAGTCGATTTGATGAATAATTTATACAAG
AATAAATTTTTGGAAGAGATTCCATTATACAAGGAATTATTAAAACTCTTTCTCTGTAAA
GAACTCATTAATTTTGATGCTCTCAATCAAGTTTATGGAAAAGAGTTGATGGGACTTAAT
GTCTTTAAAAAGGACACAGAACATGGAAAAAAGAGTTGGGAAGAGTTGAAAAATCGTCTT
ATTGAACATAATGTTCGGATCATTGCAAGTTATTACACACGCATCCATATTTCAAGAATG
TCAGAACTTTTGGATCTTGATGAATTACAAACTGAAGATGTTCTCGCCAAGTTAGTAAAT
AATGGTACATTAAAGGTGAAAATTGATCGACCTGCAGGCATTATTTACTTCACACAGAAA
AAGAGCCAATCAGAAGTCCTTAATGATTGGTCGAATGGTTTAAATGAGTTGATGGCATGT
GTCAATAAGACTACACATCTTATTCAAAAAGAAGAGTGCTTGAATCAATTGTTAAAGTAA
>g3360.t3 Gene=g3360 Length=165
MNNLYKNKFLEEIPLYKELLKLFLCKELINFDALNQVYGKELMGLNVFKKDTEHGKKSWE
ELKNRLIEHNVRIIASYYTRIHISRMSELLDLDELQTEDVLAKLVNNGTLKVKIDRPAGI
IYFTQKKSQSEVLNDWSNGLNELMACVNKTTHLIQKEECLNQLLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3360.t3 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 52 | 132 | 0.000 |
| 3 | g3360.t3 | PANTHER | PTHR10855:SF1 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12 | 1 | 160 | 0.000 |
| 4 | g3360.t3 | PANTHER | PTHR10855 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12/COP9 SIGNALOSOME COMPLEX SUBUNIT 4 | 1 | 160 | 0.000 |
| 2 | g3360.t3 | Pfam | PF01399 | PCI domain | 16 | 124 | 0.000 |
| 1 | g3360.t3 | Pfam | PF18098 | 26S proteasome regulatory subunit RPN5 C-terminal domain | 130 | 161 | 0.000 |
| 9 | g3360.t3 | ProSiteProfiles | PS50250 | PCI domain profile. | 1 | 128 | 18.696 |
| 6 | g3360.t3 | SMART | SM00088 | PINT_4 | 57 | 143 | 0.000 |
| 7 | g3360.t3 | SMART | SM00753 | motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 | 57 | 143 | 0.000 |
| 5 | g3360.t3 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 55 | 133 | 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 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.
