Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome non-ATPase 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_3 g3693 g3693.t10 isoform g3693.t10 27483568 27491936
chr_3 g3693 g3693.t10 exon g3693.t10.exon1 27483568 27484378
chr_3 g3693 g3693.t10 cds g3693.t10.CDS1 27483684 27484378
chr_3 g3693 g3693.t10 exon g3693.t10.exon2 27484442 27484655
chr_3 g3693 g3693.t10 cds g3693.t10.CDS2 27484442 27484613
chr_3 g3693 g3693.t10 exon g3693.t10.exon3 27491924 27491936
chr_3 g3693 g3693.t10 TSS g3693.t10 27492175 27492175
chr_3 g3693 g3693.t10 TTS g3693.t10 NA NA

Sequences

>g3693.t10 Gene=g3693 Length=1038
CATTTTAAAAAGCATCAATATTCTCGCTATAATAAAAAGTGAAAAAAATATCAAAATGCC
TGCCGAACTTTCAACCGCAAAAGTAGTAATTCATCCATTGGTTTTGCTATCAGTTGTCGA
TCATTTCACTAGAATGAGTAAAATTGGTAATCAAAAGAGAGTTGTTGGTGTTTTGCTTGG
TTGTTGGAAAGCAAAAGGAATTTTAGATGTTTCAAACAGTTTTGCAGTTCCATTTGATGA
AGATGATAAAGATAAAAGTGTTTGGTTCTTGGATCATGATTATCTTGAATCAATGTATGG
TATGTTCAAGAAAGTAAATGCACGTGAAAGAGTTGTTGGCTGGTATCATACGGGACCAAA
ATTACATCAGAATGATATTGCAATTAATGAACTTTTGCGACGCTATTGCCCAAATTCAGT
GTTAGTTATAATAGATGCTCATCCGAAAGAACTTGGTTTGCCTACTGAAGCATATATTGC
AGTTGAAGAGGTTCATGATGATGGAACATTAACTAAAAAAACATTTGAGCATGTCCCGAG
TCAAATTGGTGCAGAAGAAGCTGAAGAAGTTGGTGTTGAACACCTATTACGTGATATCAA
AGACACTACTGTTGGAAGTTTGTCACAGAAAGTCACGAATCAACTATTGGGTTTAAAAGG
ACTAAATGCGCAACTTCGAGATATTAAAGAGTATCTACTCAAAGTTGGAAATGGAGAAAT
GCCCATCAATCATCAAATTATGTATCAAATGCAAGATATTTTCAATCTTCTTCCCGACAT
TAGTCATGATAATTTCACCGACACTCTTTATATCAAGACTAACGATCAAATGCTTGTTGT
TTATTTAGCTTCATTGGTTCGATCCATTATTGCTTTACATAATTTAATTAACAATAAGCT
TACAGAAGTATGTCAAGAATAAAAGGACATGTTTGATGTATGAATTCTCTTCTCTATTTG
TATTTCTTGAATTCAATAAACACTTACAAACTGAACTTTATGAATTTAATAAACATTTAT
ATTTAAACTTTCATAAAA

>g3693.t10 Gene=g3693 Length=288
MPAELSTAKVVIHPLVLLSVVDHFTRMSKIGNQKRVVGVLLGCWKAKGILDVSNSFAVPF
DEDDKDKSVWFLDHDYLESMYGMFKKVNARERVVGWYHTGPKLHQNDIAINELLRRYCPN
SVLVIIDAHPKELGLPTEAYIAVEEVHDDGTLTKKTFEHVPSQIGAEEAEEVGVEHLLRD
IKDTTVGSLSQKVTNQLLGLKGLNAQLRDIKEYLLKVGNGEMPINHQIMYQMQDIFNLLP
DISHDNFTDTLYIKTNDQMLVVYLASLVRSIIALHNLINNKLTEVCQE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g3693.t10 CDD cd08062 MPN_RPN7_8 9 282 0.000
6 g3693.t10 Gene3D G3DSA:3.40.140.10 Cytidine Deaminase 3 187 0.000
3 g3693.t10 PANTHER PTHR10540:SF12 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 7 3 283 0.000
4 g3693.t10 PANTHER PTHR10540 EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT F-RELATED 3 283 0.000
2 g3693.t10 Pfam PF01398 JAB1/Mov34/MPN/PAD-1 ubiquitin protease 7 120 0.000
1 g3693.t10 Pfam PF13012 Maintenance of mitochondrial structure and function 168 279 0.000
7 g3693.t10 ProSiteProfiles PS50249 MPN domain profile. 10 146 19.323
5 g3693.t10 SMART SM00232 pad1_6 9 145 0.000

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:0008237 metallopeptidase activity MF
GO:0005515 protein binding MF
GO:0005838 proteasome regulatory particle CC
GO:0070122 isopeptidase 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