Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome regulatory subunit 7.

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 g9569 g9569.t13 TTS g9569.t13 4074061 4074061
chr_1 g9569 g9569.t13 isoform g9569.t13 4074131 4075622
chr_1 g9569 g9569.t13 exon g9569.t13.exon1 4074131 4074747
chr_1 g9569 g9569.t13 cds g9569.t13.CDS1 4074131 4074747
chr_1 g9569 g9569.t13 exon g9569.t13.exon2 4074824 4075251
chr_1 g9569 g9569.t13 cds g9569.t13.CDS2 4074824 4075251
chr_1 g9569 g9569.t13 exon g9569.t13.exon3 4075308 4075479
chr_1 g9569 g9569.t13 cds g9569.t13.CDS3 4075308 4075479
chr_1 g9569 g9569.t13 exon g9569.t13.exon4 4075547 4075622
chr_1 g9569 g9569.t13 cds g9569.t13.CDS4 4075547 4075622
chr_1 g9569 g9569.t13 TSS g9569.t13 4075709 4075709

Sequences

>g9569.t13 Gene=g9569 Length=1293
ATGCCGGATCATTTAGGTGATGATATGCGTAAGGTGAAAGTGGACGATAAGGAAAAAGAT
GAGCCAGTAATAAAAGATCTCGATGAAGGAGATATTGAGCTTTTAAAGACTTATGGACAG
GGACAGTATCATAAAAGTATCAAACAAATTGAAGATGATATCCAAAAGGCAATTAAACAA
GTTAATGAACTCACTGGAATCAAAGAAAGTGACACTGGTCTTGCTCCTCCAGCTTTGTGG
GATTTAGCTGCTGATAAACAAACACTTCAGAATGAGCAACCATTACAAGTAGCTCGCTGT
ACAAAAATTATTAATGCGGATTCGGATGATCCTAAATATATCATCAATGTTAAGCAATTT
GCAAAATTTGTAGTTGATCTTGCTGACTCAGTTGCACCAACAGATATTGAAGAAGGAATG
CGTGTGGGTGTTGATAGAAATAAATATCAAATTCATATTCCATTGCCTCCGAAAATTGAT
CCAACTGTTACAATGATGCAAGTTGAAGATAAACCAGATGTCACTTACTCAGATGTTGGA
GGATGTAAAGAACAGATTGAGAAACTTAGAGAAGTTGTTGAAACACCTCTCTTGCATCCA
GAAAAGTTTGTCACACTCGGTATTGAACCACCAAAAGGCGTGCTTCTTTTTGGACCACCT
GGAACTGGCAAGGTTTTTGCAAATCGTACTGATGCTTGTTTTATTCGTGTAATTGGATCT
GAGTTGGTTCAGAAATATGTCGGTGAAGGAGCGAGAATGGTTCGCGAATTATTTGAAATG
GCACGCAGTAAAAAAGCTTGTCTCATCTTTTTCGATGAAATTGATGCTATTGGTGGTGCA
CGTTTTGACGATGGTGCAGGAGGAGATAATGAAGTTCAAAGAACTATGTTGGAACTTATT
AATCAACTTGATGGTTTTGATCCTCGTGGTAATATCAAAGTTTTGATGGCTACAAATCGT
CCTGATACTTTAGATCCTGCATTAATGCGTCCTGGTCGTCTCGATAGAAAAGTTGAATTT
GGCTTACCTGACCTCGAAGGAAGAGCTCACATTTTTAAAATTCATGCTCGTTCAATGTCT
GTTGAGCGTGATATTCGCTTTGAATTGCTTGCTCGATTATGTCCTAATTCAACTGGTGCT
GAAATTCGATCAGTTTGCACAGAAGCTGGCATGTTTGCTATTCGTGCACGACGTAAAGTT
GCAACAGAGAAAGATTTCCTTGAAGCTGTGAACAAAGTCATCAAGAGCTACGCCAAATTC
TCAGCTACTCCACGTTACATGACTTACAATTAA

>g9569.t13 Gene=g9569 Length=430
MPDHLGDDMRKVKVDDKEKDEPVIKDLDEGDIELLKTYGQGQYHKSIKQIEDDIQKAIKQ
VNELTGIKESDTGLAPPALWDLAADKQTLQNEQPLQVARCTKIINADSDDPKYIINVKQF
AKFVVDLADSVAPTDIEEGMRVGVDRNKYQIHIPLPPKIDPTVTMMQVEDKPDVTYSDVG
GCKEQIEKLREVVETPLLHPEKFVTLGIEPPKGVLLFGPPGTGKVFANRTDACFIRVIGS
ELVQKYVGEGARMVRELFEMARSKKACLIFFDEIDAIGGARFDDGAGGDNEVQRTMLELI
NQLDGFDPRGNIKVLMATNRPDTLDPALMRPGRLDRKVEFGLPDLEGRAHIFKIHARSMS
VERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARRKVATEKDFLEAVNKVIKSYAKF
SATPRYMTYN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g9569.t13 CDD cd00009 AAA 180 342 2.13286E-21
9 g9569.t13 Coils Coil Coil 47 67 -
8 g9569.t13 Gene3D G3DSA:2.40.50.140 - 40 166 5.9E-25
6 g9569.t13 Gene3D G3DSA:3.40.50.300 - 167 341 1.1E-57
7 g9569.t13 Gene3D G3DSA:1.10.8.60 - 343 415 8.8E-23
3 g9569.t13 PANTHER PTHR23073 26S PROTEASOME REGULATORY SUBUNIT 18 428 2.9E-244
4 g9569.t13 PANTHER PTHR23073:SF13 26S PROTEASOME REGULATORY SUBUNIT 7 18 428 2.9E-244
1 g9569.t13 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 214 341 3.8E-31
2 g9569.t13 Pfam PF17862 AAA+ lid domain 364 408 1.1E-8
11 g9569.t13 ProSitePatterns PS00674 AAA-protein family signature. 312 330 -
12 g9569.t13 SMART SM00382 AAA_5 210 344 2.4E-13
5 g9569.t13 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 172 417 4.27E-61
13 g9569.t13 TIGRFAM TIGR01242 26Sp45: 26S proteasome subunit P45 family 107 413 5.3E-116

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.

Raw TPM values