Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit beta type-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_2 g8087 g8087.t1 TSS g8087.t1 28534491 28534491
chr_2 g8087 g8087.t1 isoform g8087.t1 28534620 28535526
chr_2 g8087 g8087.t1 exon g8087.t1.exon1 28534620 28534681
chr_2 g8087 g8087.t1 cds g8087.t1.CDS1 28534620 28534681
chr_2 g8087 g8087.t1 exon g8087.t1.exon2 28534764 28535526
chr_2 g8087 g8087.t1 cds g8087.t1.CDS2 28534764 28535526
chr_2 g8087 g8087.t1 TTS g8087.t1 28535595 28535595

Sequences

>g8087.t1 Gene=g8087 Length=825
ATGAATAGTGTTTTAGCACCTGAAATTGAACAACATGGATTTAACTTCTCTAATTGTCGC
AGAAATGAAAAACTCATTCATGATGGATTTAAACCACCTAAAGCTACTAAAACAGGAACC
ACTATTGTTGGAATTATCTATAAACATGGAGTAATTTTGGGTGCTGATACTAGAGCAACA
AGCGGAAATATTGTGAGCGATAAAAATTGCGAGAAAATTCACTTCTTGGCAAAAAATATG
TACTGCTGTGGAGCTGGAACAGCAGCTGATACTGAAATGACAACAAAAATGATTGCAAGT
CAACTTGAATTGCATCGATTAAACACTAATCGTGTAGTTCCTGTTCCTTGTGCTTCAACT
TTGTTGAAGCAATATTTATTTCGCTATCAGGGTCATGTAAGTGCTGCTCTTGTTCTTGGT
GGTGTTGATAATCAAGGACCTCATATCTATTGCATCTATCCACACGGATCAACTGATAAA
CTTCCATATGCTACAATGGGCTCAGGTTCTTTAGCCGCTATGTCGGTATTTGAGTCGCGT
TGGAAACCAGATATGGAAGAAGAGGAAGGCAAGAAACTTGTTCGTGATGCAATTGCTGCT
GGTATTTTCAATGACCTTGGATCAGGTTCTAATGTAGACCTGTGTATTATCCGAAAAGAT
TCCACTCAATATTTACGCAATTATGAATTGGCTAATGAGAAAGGTGTTAGAAATTTGGAT
TATACATATAAGCGAGGTACGACTGGCGTTTTGTCAGTTAAGAAAATTGCATTCGATGTA
GTAGAAGAATCAACATCCGGCATTGAAAAAATGGACACAAATTAA

>g8087.t1 Gene=g8087 Length=274
MNSVLAPEIEQHGFNFSNCRRNEKLIHDGFKPPKATKTGTTIVGIIYKHGVILGADTRAT
SGNIVSDKNCEKIHFLAKNMYCCGAGTAADTEMTTKMIASQLELHRLNTNRVVPVPCAST
LLKQYLFRYQGHVSAALVLGGVDNQGPHIYCIYPHGSTDKLPYATMGSGSLAAMSVFESR
WKPDMEEEEGKKLVRDAIAAGIFNDLGSGSNVDLCIIRKDSTQYLRNYELANEKGVRNLD
YTYKRGTTGVLSVKKIAFDVVEESTSGIEKMDTN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g8087.t1 CDD cd03763 proteasome_beta_type_7 40 228 4.49758E-135
10 g8087.t1 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 40 274 1.3E-81
3 g8087.t1 PANTHER PTHR11599:SF42 PROTEASOME SUBUNIT BETA TYPE-7 20 263 7.1E-106
4 g8087.t1 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 20 263 7.1E-106
5 g8087.t1 PRINTS PR00141 Proteasome component signature 47 62 2.3E-9
8 g8087.t1 PRINTS PR00141 Proteasome component signature 167 178 2.3E-9
7 g8087.t1 PRINTS PR00141 Proteasome component signature 178 189 2.3E-9
6 g8087.t1 PRINTS PR00141 Proteasome component signature 203 214 2.3E-9
1 g8087.t1 Pfam PF00227 Proteasome subunit 37 217 8.1E-51
2 g8087.t1 Pfam PF12465 Proteasome beta subunits C terminal 231 265 2.2E-10
12 g8087.t1 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 43 90 -
13 g8087.t1 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 39 217 49.887
9 g8087.t1 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 9 232 8.55E-69

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:0051603 proteolysis involved in cellular protein catabolic process BP
GO:0004298 threonine-type endopeptidase activity MF
GO:0005839 proteasome core complex CC

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