Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 6B.

Parent gene

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_1 g11790 g11790.t9 TTS g11790.t9 18445527 18445527
chr_1 g11790 g11790.t9 isoform g11790.t9 18445624 18447039
chr_1 g11790 g11790.t9 exon g11790.t9.exon1 18445624 18446745
chr_1 g11790 g11790.t9 cds g11790.t9.CDS1 18445624 18446745
chr_1 g11790 g11790.t9 exon g11790.t9.exon2 18446808 18446897
chr_1 g11790 g11790.t9 cds g11790.t9.CDS2 18446808 18446897
chr_1 g11790 g11790.t9 exon g11790.t9.exon3 18447007 18447039
chr_1 g11790 g11790.t9 cds g11790.t9.CDS3 18447007 18447039
chr_1 g11790 g11790.t9 TSS g11790.t9 18447113 18447113

Sequences

>g11790.t9 Gene=g11790 Length=1245
ATGGCAGAAATTGAAGCAATTGCAGTAGATAAGATAAAGGAGGAAGCCACTGATGCAAAT
AAATCTGTAAAAGAACCAAGCTTAGAAGAGCTTGATGTAGAAGATTTGTATACAAAATAT
AAGAAATTACAAAAACAATTGGAATTTTTGGAAGTTCAAGAAGAGTACATTAAAGATGAA
CAGCGTAATTTAAAGAAAGAGTATTTACATGCACAAGAAGAAGTAAAGAGAATTCAATCA
GTTCCACTTGTGATTGGTCAATTTTTAGAAGCGGTTGATCAAAATACTGGTATAGTAGGA
TCTACTACTGGATCAAATTATTATGTTCGAATTCTATCAACAATCGATCGTGAACTTTTA
AAACCTTCAGCAAGTGTGGCACTACATAAACATAGTAATGCACTTGTCGATGTTCTACCA
CCCGAGGCAGACAGCTCAATTTCCATGCTTCAACCTGATGAAAAACCAGATGTTCAATAT
AGTGATATCGGTGGCATGGATATGCAAAAACAAGAAATTCGTGAAGCAGTTGAACTTCCT
TTAACTCACTTCGAGTTATACAAACAAATTGGTATTGATCCACCTCGAGGTGTGCTAATG
TTTGGACCGCCTGGTTGTGGCAAAACAATGTTGGCTAAAGCTGTTGCTCATCATACTACT
GCTGCGTTTATTCGAGTTGTTGGATCAGAATTTGTACAAAAATATCTTGGTGAAGGTCCA
AGGATGGTTCGAGATGTGTTTCGTTTAGCAAAAGAAAATTCACCAGCAATCATTTTCATT
GATGAGATTGATGCGATTGCTACTAAACGTTTTGATGCACAAACTGGTGCCGATCGAGAG
GTTCAACGAATTCTGCTTGAGTTACTTAATCAAATGGACGGTTTTGATCAAACCACAAAT
GTGAAAGTAATTATGGCAACAAATCGAGCTGATACATTAGATCCAGCACTGCTTCGTCCT
GGTCGTTTGGATCGTAAAATTGAATTTCCTTTGCCGGATAGACGTCAAAAACGTTTGATT
TTTTCAACAATTACTTCAAAAATGAATTTATCAGAAGATGTTGATTTGGAAGATTATGTT
GCTCGACCTGATAAAATATCGGGAGCTGATATTAATGCAATTTGCCAAGAAGCAGGTATG
CATGCTGTACGTGAAAATCGATATATTGTTTTAGCAAAAGACTTTGAAAAAGGCTACAAG
AATAATATCAAGAAAGATGAGCAAGAACACGAGTTTTACAAATAA

>g11790.t9 Gene=g11790 Length=414
MAEIEAIAVDKIKEEATDANKSVKEPSLEELDVEDLYTKYKKLQKQLEFLEVQEEYIKDE
QRNLKKEYLHAQEEVKRIQSVPLVIGQFLEAVDQNTGIVGSTTGSNYYVRILSTIDRELL
KPSASVALHKHSNALVDVLPPEADSSISMLQPDEKPDVQYSDIGGMDMQKQEIREAVELP
LTHFELYKQIGIDPPRGVLMFGPPGCGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGP
RMVRDVFRLAKENSPAIIFIDEIDAIATKRFDAQTGADREVQRILLELLNQMDGFDQTTN
VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFSTITSKMNLSEDVDLEDYV
ARPDKISGADINAICQEAGMHAVRENRYIVLAKDFEKGYKNNIKKDEQEHEFYK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g11790.t9 CDD cd00009 AAA 164 331 4.74193E-27
13 g11790.t9 Coils Coil Coil 33 67 -
12 g11790.t9 Gene3D G3DSA:2.40.50.140 - 41 150 4.4E-30
10 g11790.t9 Gene3D G3DSA:3.40.50.300 - 151 331 2.4E-68
11 g11790.t9 Gene3D G3DSA:1.10.8.60 - 335 414 1.6E-23
4 g11790.t9 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 25 413 6.8E-235
5 g11790.t9 PANTHER PTHR23073:SF120 26S PROTEASOME REGULATORY SUBUNIT 6B HOMOLOG 25 413 6.8E-235
7 g11790.t9 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature 198 216 7.1E-5
8 g11790.t9 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature 270 288 7.1E-5
6 g11790.t9 PRINTS PR00300 ATP-dependent Clp protease ATP-binding subunit signature 297 311 7.1E-5
1 g11790.t9 Pfam PF16450 Proteasomal ATPase OB C-terminal domain 85 140 1.1E-10
2 g11790.t9 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 198 331 2.2E-43
3 g11790.t9 Pfam PF17862 AAA+ lid domain 353 397 7.5E-12
15 g11790.t9 ProSitePatterns PS00674 AAA-protein family signature. 301 319 -
16 g11790.t9 SMART SM00382 AAA_5 194 333 1.4E-23
9 g11790.t9 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 156 403 3.2E-66
17 g11790.t9 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 41 398 7.0E-138

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

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. There were no conditions that were differentially expressed