Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome subunit beta type-4.

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 g7764 g7764.t16 TSS g7764.t16 25865022 25865022
chr_2 g7764 g7764.t16 isoform g7764.t16 25865112 25866081
chr_2 g7764 g7764.t16 exon g7764.t16.exon1 25865112 25865245
chr_2 g7764 g7764.t16 cds g7764.t16.CDS1 25865227 25865245
chr_2 g7764 g7764.t16 exon g7764.t16.exon2 25865444 25866081
chr_2 g7764 g7764.t16 cds g7764.t16.CDS2 25865444 25866081
chr_2 g7764 g7764.t16 TTS g7764.t16 25866145 25866145

Sequences

>g7764.t16 Gene=g7764 Length=772
ATGATGTCGAATAATGGAGTTAATTTCGCACCGTTTTGGCATAATGGACCAGCACCAGGT
AGTTTTTATAACTTCCCTCAAAATAATATCAAATCAAATTCGGCAATTGATGAATATGGA
TTTCAAAGAAATGGTAACAACTGGAACTTCAATAGTCGGTGTTAAATACGATAAAGGTGT
TATAATTGCTGGAGATAAGCTTGTAAGCTACGGAAATTTAGCTCGCTACCATAATGTTGA
TCGTGTATTTAAGATAAATGAAAACATAATTTTGGGGATGAGTGGCGATTACGCGGATTT
TCAATTTATTAAACAGTACATTGATGAAATAATTCTCTCTGATTTTTCGGCTGATGATAG
AATTGTATTAAAACCAAAAGATTTATATACATGGTTAACAAGAGTTTTGTACAATCGTCG
TTCACGTTTTAATCCTTTGTGGCTTGATATGGTTGTCGGAGGAATGCAAGGTGAAGAACC
CTTTTTGGGCCATATTAACATTCGTGGAAGATCATATACAAACGACGTCATTTCAACCGG
CTATGGTACTCATCTTGCTCTTCCTTTACTTCGCGAATATTCGGAAAAAGGACCATTAAA
TGAAGAGACTGCTCAGCAGCTTATTCAAAAATCGATGGAAGTATTGTTCTACCGTGATTG
TCGTGGTTATCCAAAATATTCTCAAGCAAACATCAATGCAAATGGTGTAACTGTAAGTGA
TCATGAAGTTAAACAAAATTGGGATTTGGCTCTGAGCATTAAGGGATATTAA

>g7764.t16 Gene=g7764 Length=218
MDFKEMVTTGTSIVGVKYDKGVIIAGDKLVSYGNLARYHNVDRVFKINENIILGMSGDYA
DFQFIKQYIDEIILSDFSADDRIVLKPKDLYTWLTRVLYNRRSRFNPLWLDMVVGGMQGE
EPFLGHINIRGRSYTNDVISTGYGTHLALPLLREYSEKGPLNEETAQQLIQKSMEVLFYR
DCRGYPKYSQANINANGVTVSDHEVKQNWDLALSIKGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7764.t16 CDD cd03760 proteasome_beta_type_4 9 202 1.07921E-101
5 g7764.t16 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate 4 218 1.5E-54
2 g7764.t16 PANTHER PTHR11599:SF5 PROTEASOME SUBUNIT BETA TYPE-4 6 205 9.2E-59
3 g7764.t16 PANTHER PTHR11599 PROTEASOME SUBUNIT ALPHA/BETA 6 205 9.2E-59
6 g7764.t16 PIRSF PIRSF001213 MCP 2 218 2.7E-86
1 g7764.t16 Pfam PF00227 Proteasome subunit 7 184 7.6E-29
8 g7764.t16 ProSitePatterns PS00854 Proteasome beta-type subunits signature. 14 61 -
9 g7764.t16 ProSiteProfiles PS51476 Proteasome beta-type subunit profile. 10 193 32.067
4 g7764.t16 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 5 210 7.73E-49

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