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.t4 TSS g8087.t4 28534491 28534491
chr_2 g8087 g8087.t4 isoform g8087.t4 28534620 28535526
chr_2 g8087 g8087.t4 exon g8087.t4.exon1 28534620 28534681
chr_2 g8087 g8087.t4 cds g8087.t4.CDS1 28534654 28534681
chr_2 g8087 g8087.t4 exon g8087.t4.exon2 28534817 28535526
chr_2 g8087 g8087.t4 cds g8087.t4.CDS2 28534817 28535526
chr_2 g8087 g8087.t4 TTS g8087.t4 28535595 28535595

Sequences

>g8087.t4 Gene=g8087 Length=772
ATGAATAGTGTTTTAGCACCTGAAATTGAACAACATGGATTTAACTTCTCTAATTGTCGC
AGGAACCACTATTGTTGGAATTATCTATAAACATGGAGTAATTTTGGGTGCTGATACTAG
AGCAACAAGCGGAAATATTGTGAGCGATAAAAATTGCGAGAAAATTCACTTCTTGGCAAA
AAATATGTACTGCTGTGGAGCTGGAACAGCAGCTGATACTGAAATGACAACAAAAATGAT
TGCAAGTCAACTTGAATTGCATCGATTAAACACTAATCGTGTAGTTCCTGTTCCTTGTGC
TTCAACTTTGTTGAAGCAATATTTATTTCGCTATCAGGGTCATGTAAGTGCTGCTCTTGT
TCTTGGTGGTGTTGATAATCAAGGACCTCATATCTATTGCATCTATCCACACGGATCAAC
TGATAAACTTCCATATGCTACAATGGGCTCAGGTTCTTTAGCCGCTATGTCGGTATTTGA
GTCGCGTTGGAAACCAGATATGGAAGAAGAGGAAGGCAAGAAACTTGTTCGTGATGCAAT
TGCTGCTGGTATTTTCAATGACCTTGGATCAGGTTCTAATGTAGACCTGTGTATTATCCG
AAAAGATTCCACTCAATATTTACGCAATTATGAATTGGCTAATGAGAAAGGTGTTAGAAA
TTTGGATTATACATATAAGCGAGGTACGACTGGCGTTTTGTCAGTTAAGAAAATTGCATT
CGATGTAGTAGAAGAATCAACATCCGGCATTGAAAAAATGGACACAAATTAA

>g8087.t4 Gene=g8087 Length=245
MDLTSLIVAGTTIVGIIYKHGVILGADTRATSGNIVSDKNCEKIHFLAKNMYCCGAGTAA
DTEMTTKMIASQLELHRLNTNRVVPVPCASTLLKQYLFRYQGHVSAALVLGGVDNQGPHI
YCIYPHGSTDKLPYATMGSGSLAAMSVFESRWKPDMEEEEGKKLVRDAIAAGIFNDLGSG
SNVDLCIIRKDSTQYLRNYELANEKGVRNLDYTYKRGTTGVLSVKKIAFDVVEESTSGIE
KMDTN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8087.t4 CDD cd03763 proteasome_beta_type_7 11 199 1.02882E-133
11 g8087.t4 Coils Coil Coil 241 245 -
10 g8087.t4 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 11 245 8.8E-82
3 g8087.t4 PANTHER PTHR11599:SF42 PROTEASOME SUBUNIT BETA TYPE-7 9 234 2.3E-102
4 g8087.t4 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 9 234 2.3E-102
8 g8087.t4 PRINTS PR00141 Proteasome component signature 18 33 1.7E-9
7 g8087.t4 PRINTS PR00141 Proteasome component signature 138 149 1.7E-9
5 g8087.t4 PRINTS PR00141 Proteasome component signature 149 160 1.7E-9
6 g8087.t4 PRINTS PR00141 Proteasome component signature 174 185 1.7E-9
1 g8087.t4 Pfam PF00227 Proteasome subunit 9 188 3.0E-50
2 g8087.t4 Pfam PF12465 Proteasome beta subunits C terminal 202 236 1.9E-10
13 g8087.t4 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 14 61 -
14 g8087.t4 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 10 188 49.887
9 g8087.t4 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 6 203 3.46E-64

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. There were no conditions that were differentially expressed