General information for g1602.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 26S proteasome regulatory subunit 4.
Parent gene
- The parent gene g1602 is located on chr_3: 12086969..12087946 (- 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 | g1602 | g1602.t1 | TTS | g1602.t1 | 12086105 | 12086105 |
| chr_3 | g1602 | g1602.t1 | isoform | g1602.t1 | 12086169 | 12087914 |
| chr_3 | g1602 | g1602.t1 | exon | g1602.t1.exon1 | 12086169 | 12086711 |
| chr_3 | g1602 | g1602.t1 | cds | g1602.t1.CDS1 | 12086169 | 12086711 |
| chr_3 | g1602 | g1602.t1 | exon | g1602.t1.exon2 | 12086767 | 12086869 |
| chr_3 | g1602 | g1602.t1 | cds | g1602.t1.CDS2 | 12086767 | 12086869 |
| chr_3 | g1602 | g1602.t1 | exon | g1602.t1.exon3 | 12086934 | 12087171 |
| chr_3 | g1602 | g1602.t1 | cds | g1602.t1.CDS3 | 12086934 | 12087171 |
| chr_3 | g1602 | g1602.t1 | exon | g1602.t1.exon4 | 12087358 | 12087784 |
| chr_3 | g1602 | g1602.t1 | cds | g1602.t1.CDS4 | 12087358 | 12087784 |
| chr_3 | g1602 | g1602.t1 | exon | g1602.t1.exon5 | 12087912 | 12087914 |
| chr_3 | g1602 | g1602.t1 | cds | g1602.t1.CDS5 | 12087912 | 12087914 |
| chr_3 | g1602 | g1602.t1 | TSS | g1602.t1 | 12088004 | 12088004 |
Sequences
>g1602.t1 Gene=g1602 Length=1314
ATGGGCCAAAATCAATCTTCTGGTAGTGGAGATAAAAAAGATGATAAAGACAAGAAGAAG
AAGTACGAGCCACCAATTCCAACTCGCGTTGGTAAAAAGAAGCGAAAACAGAAGGGACCA
GATGCTGCATTAAAACTTCCGCAAGTCACTCCGCATACTCGTTGTCGTTTGAAATTGCTT
AAACTTGAACGCATCAAAGATTACCTTCTTATGGAAGAGGAATTTATTCGTAATCAAGAG
CGTTTGAAGCCTCAAGAAGAGAAGAATGAAGAAGAAAGGTCGAAAGTTGATGATTTGAGA
GGAACACCAATGTCTGTTGGTAATCTGGAAGAAATCATTGATGATAATCATGCAATTGTT
TCAACATCAGTTGGTAGTGAGCATTACGTTAGCATATTATCATTTGTCGATAAAGATCAA
CTTGAACCAGGATGTTCGGTCTTATTAAATCATAAAGTTCATGCTGTAGTTGGTGTATTA
AGTGATGATACAGATCCAATGGTTACGGTAATGAAATTAGAAAAAGCTCCACAAGAAACT
TATGCCGATATTGGCGGATTAGATACGCAAATTCAAGAAATTAAAGAGTCTGTTGAATTA
CCTTTAACACATCCTGAATATTATGAAGAAATGGGTATTAAACCACCAAAAGGAGTCATT
TTATATGGTCCACCAGGTACAGGCAAAACTTTACTTGCTAAAGCTGTAGCTAATCAGACA
TCAGCTACTTTCCTACGTGTTGTTGGATCAGAATTAATTCAAAAGTATTTGGGTGATGGT
CCAAAATTAGTTCGTGAATTGTTTCGCGTTGCAGAAGAACACGCACCATCTATCGTTTTT
ATTGATGAAATTGATGCAGTTGGCACAAAACGTTATGATTCAAATTCAGGCGGTGAGAGA
GAAATTCAAAGAACTATGTTGGAGTTGCTTAATCAATTAGATGGTTTTGATTCACGTGGT
GATGTGAAAGTTATTATGGCAACAAATAGAATTGAAACTCTTGATCCTGCTCTCATTCGT
CCCGGACGTATTGATCGTAAAATTGAATTCCCTCTGCCAGATGAGAAGACAAAGAGAAGA
ATTTTCAATATTCACACTTCAAAAATGACACTCGCATCCGATGTCAATCTTTCTGAATTA
ATTATGGCAAAAGATGATTTGTCTGGGGCTGATATAAAAGCTATTTGTACTGAAGCTGGT
TTGATGGCTTTGCGTGAACGTCGAATGAAGGTTACAAATGATGACTTTAAGAAATCGAAA
GAGAGTGTACTTTATCGTAAAAAAGAAGGAACCCCAGATGGTTTATATTTGTAA
>g1602.t1 Gene=g1602 Length=437
MGQNQSSGSGDKKDDKDKKKKYEPPIPTRVGKKKRKQKGPDAALKLPQVTPHTRCRLKLL
KLERIKDYLLMEEEFIRNQERLKPQEEKNEEERSKVDDLRGTPMSVGNLEEIIDDNHAIV
STSVGSEHYVSILSFVDKDQLEPGCSVLLNHKVHAVVGVLSDDTDPMVTVMKLEKAPQET
YADIGGLDTQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQT
SATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAVGTKRYDSNSGGER
EIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKRR
IFNIHTSKMTLASDVNLSELIMAKDDLSGADIKAICTEAGLMALRERRMKVTNDDFKKSK
ESVLYRKKEGTPDGLYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1602.t1 | CDD | cd00009 | AAA | 185 | 352 | 7.21156E-29 |
| 9 | g1602.t1 | Gene3D | G3DSA:2.40.50.140 | - | 104 | 171 | 6.1E-29 |
| 7 | g1602.t1 | Gene3D | G3DSA:3.40.50.300 | - | 172 | 352 | 9.3E-69 |
| 8 | g1602.t1 | Gene3D | G3DSA:1.10.8.60 | - | 357 | 432 | 6.8E-22 |
| 13 | g1602.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 47 | - |
| 14 | g1602.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 9 | 30 | - |
| 4 | g1602.t1 | PANTHER | PTHR23073 | 26S PROTEASOME REGULATORY SUBUNIT | 28 | 436 | 4.0E-255 |
| 5 | g1602.t1 | PANTHER | PTHR23073:SF77 | 26S PROTEASOME REGULATORY SUBUNIT 4 | 28 | 436 | 4.0E-255 |
| 1 | g1602.t1 | Pfam | PF16450 | Proteasomal ATPase OB C-terminal domain | 106 | 160 | 4.9E-11 |
| 2 | g1602.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 219 | 352 | 1.9E-42 |
| 3 | g1602.t1 | Pfam | PF17862 | AAA+ lid domain | 374 | 418 | 6.6E-11 |
| 11 | g1602.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 322 | 340 | - |
| 12 | g1602.t1 | SMART | SM00382 | AAA_5 | 215 | 354 | 1.4E-22 |
| 6 | g1602.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 177 | 429 | 2.74E-67 |
| 15 | g1602.t1 | TIGRFAM | TIGR01242 | 26Sp45: 26S proteasome subunit P45 family | 76 | 423 | 4.0E-141 |
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:0005524 | ATP binding | MF |
| GO:0036402 | proteasome-activating activity | MF |
| GO:0030163 | protein catabolic process | BP |
| GO:0005737 | cytoplasm | CC |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03062 (26S proteasome regulatory subunit T2)
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.
