General information for g936.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 13.
Parent gene
- The parent gene g936 is located on chr_3: 6974999..6976564 (- 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 | g936 | g936.t1 | TTS | g936.t1 | 6974944 | 6974944 |
| chr_3 | g936 | g936.t1 | isoform | g936.t1 | 6974999 | 6976198 |
| chr_3 | g936 | g936.t1 | exon | g936.t1.exon1 | 6974999 | 6976037 |
| chr_3 | g936 | g936.t1 | cds | g936.t1.CDS1 | 6974999 | 6976037 |
| chr_3 | g936 | g936.t1 | exon | g936.t1.exon2 | 6976095 | 6976198 |
| chr_3 | g936 | g936.t1 | cds | g936.t1.CDS2 | 6976095 | 6976198 |
| chr_3 | g936 | g936.t1 | TSS | g936.t1 | 6976445 | 6976445 |
Sequences
>g936.t1 Gene=g936 Length=1143
ATGTCGCAAACAGCTGTAACAAATTATTTAAATGAGCAAAAGCGTACGACTGACAAAGAA
TTGGCTGCAGAATGGGGTGTTCTTGAAGAATTGTATAATGAAAAGCTCTATAATGAGTTA
ACAATCAAATTAGATTCTTTTGTTAAGAATCCAAATATGCAAAATGAGCAAGTTCTTATG
CAATTGTATACAAATTTCATCCAGTCATTTGAGACAAAAATAAATCCTTTTGGGTTAGTT
GAGATTCTTTCAGTTGTCATAAGCCACATGAGTGATAAAAAGGAAGCTGTGAATTTCATT
GACAAGGTAAAAGAGAAAGTAAAGATGTGTGATGAGGCAGTTTGGCTCTGTAAAGTTCTT
CAGGGACAGATTTACCTTGAATTTCTTGAAGATCTCGATTCAACAAAGAAAATTATTGAA
GAATTAAAAGATACATTGGATGAAGCAGGCAACGTTACACCCGTTCATGGCAAATACTAT
CTTCTTGCTTCACAATATTATCGTTTAATTGGGCATCACGCTGAATACTATCGTACTTCA
CTTCAATTTTTGGGATGTTCAATCGAAGAATTTCCAAAAGATCAATGGCCACAACAGGCT
TTCTTCCTCGGACTTGCAGCTTTACTCGGAGAAGGCATTTATAATATCGGTGAATTACTT
TCACATGAAATCATCGAATCACTCGTTGGAACTGAATATGAATGGCTCATTGAACTGCTT
AAAGCTTTCAATAGTGGCGATATTGGCAAATTTGATAAGATGAAGCCTCAATGGTCAAAA
ATGGCTGATTTAGCAGCACAAGAAACTAAACTACGTCAAAAAATCTCACTCCTTTGCTTA
ATGGAAATGACGTTCAAACGACCTGCAAATAATCGAACTATTACATTTGCCGAAATTGCT
GAAGAAACTAGATTACCGCTCAAGGAGGTTGAACTTCTTATCATGAAGGCTCTTGCACAA
GGACTTGTTCGAGGCGCAATTGATCAAGTATCTGGAGTTGTGAATATGACTTGGGTGCAA
CCGCGAGTTCTTAATCGTGAGCAAGTGTCTAGCATGGCAAATACACTCGAAGCATGGATT
CAATCAATCACCAGTATGGAACAACTTATTGAATCAAGAGCTTCAGAAATCCTTACAAAT
TAA
>g936.t1 Gene=g936 Length=380
MSQTAVTNYLNEQKRTTDKELAAEWGVLEELYNEKLYNELTIKLDSFVKNPNMQNEQVLM
QLYTNFIQSFETKINPFGLVEILSVVISHMSDKKEAVNFIDKVKEKVKMCDEAVWLCKVL
QGQIYLEFLEDLDSTKKIIEELKDTLDEAGNVTPVHGKYYLLASQYYRLIGHHAEYYRTS
LQFLGCSIEEFPKDQWPQQAFFLGLAALLGEGIYNIGELLSHEIIESLVGTEYEWLIELL
KAFNSGDIGKFDKMKPQWSKMADLAAQETKLRQKISLLCLMEMTFKRPANNRTITFAEIA
EETRLPLKEVELLIMKALAQGLVRGAIDQVSGVVNMTWVQPRVLNREQVSSMANTLEAWI
QSITSMEQLIESRASEILTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g936.t1 | Coils | Coil | Coil | 132 | 152 | - |
| 7 | g936.t1 | Gene3D | G3DSA:1.25.40.570 | - | 171 | 342 | 2.1E-61 |
| 2 | g936.t1 | PANTHER | PTHR10539 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 13 | 6 | 378 | 2.1E-124 |
| 3 | g936.t1 | PANTHER | PTHR10539:SF0 | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 13 | 6 | 378 | 2.1E-124 |
| 1 | g936.t1 | Pfam | PF01399 | PCI domain | 235 | 337 | 2.2E-14 |
| 9 | g936.t1 | ProSiteProfiles | PS50250 | PCI domain profile. | 172 | 341 | 23.119 |
| 5 | g936.t1 | SMART | SM00088 | PINT_4 | 266 | 359 | 3.0E-18 |
| 6 | g936.t1 | SMART | SM00753 | motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 | 266 | 359 | 3.0E-18 |
| 4 | g936.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 271 | 342 | 9.98E-9 |
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 K03039 (26S proteasome regulatory subunit N9)
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.
