Gene loci information

Transcript annotation

  • This transcript has been annotated as Proteasome activator complex subunit 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_3 g2411 g2411.t1 TSS g2411.t1 17770688 17770688
chr_3 g2411 g2411.t1 isoform g2411.t1 17770836 17776801
chr_3 g2411 g2411.t1 exon g2411.t1.exon1 17770836 17771074
chr_3 g2411 g2411.t1 cds g2411.t1.CDS1 17770836 17771074
chr_3 g2411 g2411.t1 exon g2411.t1.exon2 17771154 17771264
chr_3 g2411 g2411.t1 cds g2411.t1.CDS2 17771154 17771264
chr_3 g2411 g2411.t1 exon g2411.t1.exon3 17771320 17771349
chr_3 g2411 g2411.t1 cds g2411.t1.CDS3 17771320 17771349
chr_3 g2411 g2411.t1 exon g2411.t1.exon4 17771411 17771527
chr_3 g2411 g2411.t1 cds g2411.t1.CDS4 17771411 17771527
chr_3 g2411 g2411.t1 exon g2411.t1.exon5 17771599 17773897
chr_3 g2411 g2411.t1 cds g2411.t1.CDS5 17771599 17773897
chr_3 g2411 g2411.t1 exon g2411.t1.exon6 17773953 17774128
chr_3 g2411 g2411.t1 cds g2411.t1.CDS6 17773953 17774128
chr_3 g2411 g2411.t1 exon g2411.t1.exon7 17774192 17775789
chr_3 g2411 g2411.t1 cds g2411.t1.CDS7 17774192 17775789
chr_3 g2411 g2411.t1 exon g2411.t1.exon8 17775851 17776444
chr_3 g2411 g2411.t1 cds g2411.t1.CDS8 17775851 17776444
chr_3 g2411 g2411.t1 exon g2411.t1.exon9 17776501 17776604
chr_3 g2411 g2411.t1 cds g2411.t1.CDS9 17776501 17776604
chr_3 g2411 g2411.t1 exon g2411.t1.exon10 17776667 17776801
chr_3 g2411 g2411.t1 cds g2411.t1.CDS10 17776667 17776801
chr_3 g2411 g2411.t1 TTS g2411.t1 17776921 17776921

Sequences

>g2411.t1 Gene=g2411 Length=5403
ATGGATTTAGAAGCGGACAATGAGAGATTAGAAAGTTGGAACGAAAAAAGAGTAAAAGTT
TTAGGATGGAAACCACAAAGTGAACAATTTCACAATTTTTATCTACCATATTACAATGAG
AAATCCTTTGATGAAGAAAGCAATAGAATCTTGCAGCAAATCAAACAAAATCTTGGTTTG
GCTGTTGCAACTCGAGAAATTTATCCAGCCAGTGGAGTTTATATTACAAAATTAATGTCA
TATCTGAAACTCTATGGTTTTAAATTCACTAAAGAAGAGCATGTGGAGTTTATAAAGTTG
ATTTATGAGATGATACAAATACCAAATATAGATCCTGCAAAATTAAACAAATGTTGTGTA
TGTTTGTCACAATTGTTAAGGAAATCGAAATTGCTCAGTCCAGATGACTTGCAACTTGAA
TGGCGGCCTTTATACCGTTTAGTAAAAATATACCTTGACAAGAGGAGCACAAAGGGAGAT
TTAATTCGATTCTACCCGACACTCGAGCAAAATATTCATTTTCTGATTCAATTAAGTGTG
CAGTACATTCCACTTGAATCGAATCAAGAGATTCTTAATGAGCTGTTACCCCAAATGCAG
CCACTCGATATTGGCAAAAATGATTCAGTTATGGAAATGTTATCGCTCTTTTTGAATCCA
TTGTCATATGAGCTCTGGTTTGATTATTTTATGAATCTATGGAATACATATCAATATCCA
TGTTGGAATAGTGATATTATGAACCTAATTGCATGCACTTCTGCTCAAACAATCGGCCTT
ATTGACTGGACACCTCATATACCCATTATGTTTACACGAATTCTTCGTTCTTTAGAACTT
CCTGTTAGCTACAAACAAATAAAGAGTGCAAAAAATCAATCATTGTCAGCTGATGCATCT
GCAACTTGGATTATTTCTTTAATTGGACCAAAATATGATACTATGAAATATCTCAAGAAT
CTTTTTTCTACTATTGAGTCTTATTTGAATCCAGCAAATAGTGGTAAATGGGTGAGAATG
ATTTCAGATTTGCTCGTGCAACTAGTGAAATATTTTCAAGAGAGACTAATAACAGAACGA
TACAAAAAACATCCATGGAAGAGAGCTATTCCTGCAGAGTATTGTTTACGCGATTGTGAC
ATTCAAGAATTTGTCGAAGTTTTTAAGCCTATCGCAATGACTGCAATTTATTCAAAAATG
CAACCTTACGATATTGGAAAAATTTGCAAAGGTCTAGCTGAACTTAGACCTGATTTAATT
TTACCTGATATTCTAGAAAAAGTTTCATTGACGGCAGAATTGATCAATGAACCTCATAAA
TTTACATCAGCCTTGAGTTGTCTTTCAAGTGTAGCATCTGTTGTCCTAAGAGAAGACAAT
ATTCCGGATTCAAAAGATCAAATTATTCCAATAATGTTCTCTGTTTTACCAGGAATTGAT
TCAAATGATTTCAAGAAAACATCAATTACACTTCAATTTTTAATTACTGTATCCATCATG
ATTCCTTTTGTTGATTGTTCACAAGCATCCTCTTATCATAAATTGACAGAAGAACAGTTA
ATTATATGTGAACAGACTTCACAACTTGAGGATTTTGTATTACAATTTTTGGATCGTATT
TTTACACTTATTGAGAGCTCAAGTGTTGAGAGTATTCGAATGGAACATAACAATTTGGAT
CATTTAAAATCAAAACTGGAATCAATTGCCGAAGCTTTAGTTCAAAGTGCTGCTCATTCA
ATTTTAGGTCAGTGCTCTCAAGAGATTCTTGATTCAGCCTCTTTTAAATTAGTTAATTAC
ATAAAAAACACCGCTCTCGAACCGACAGTTGCTGGAAATGCAATGAGTACTTTATGTAGA
GTTTTTGCTAGAGTAAATGGGAAAAACATTTATCATTCACTTATTCCATTCATTGTTCAG
TTAATTGACAGTCACTTTGATGAGGGCGAAGACGTTTATGAAATTGAAAAGCAAAATGAT
GACTTTTTGTATTATATTCAAATATTATGTAGTTTAGTCCGTGGTGATCCTACCGAAATT
CAATTGTATTCTGATGAAATAATTAGTGTTATTGACAAACTTCTTCGTTGCAAATGCAAA
GCGTCAAGTTGTTGCGGAGCAAATATGATAGGAAATTTTCTTACAATACTTAACACTGTT
CAAACAAATGACATTAAAACAGTTCCGTATGCTTATGAGAAGCCATTAAAAGATTTTTTA
CCAATCAAATATTGGGGACGTAAAATGAATCGTGAGGAAAAGTTTAACTTCTTTATGCCT
GGTGAAAGGGAAAGAGCTTTATGTGAAAAAATCATTCACTATTATTTGCTTCCGATATTA
TTTAAATTCGAAACTTATATTGCTGGAAATCTAATAATTTCAAGAGACGAAATGCTTTTA
AATCTACATATTGTATCTTCTGTTTTGAAATGTAATAATTTCTTAGAAAATTGGGATGAA
GAACCAATGCATTTGATTGATACCATTATCGATCTTTCTCCAATGAAATTAAATATTGGT
TTTACTGGTCTCGAAGTAAAAATGCCAGATGGTTCTAATGTTAGAAAAACAATTGTTGAT
TTACTTGATAAACTTCAAGTGAAGCTTCTTGTTGAAAGCAGTGATGACATCAAATCATTC
AAGCAATTAATCAGTTTATGGGAGAAAGTTCATCATAGAATTAATTATTCACAAAGTTTT
GATAATCAATTGAAAAATTATCAAGCATCAAAGCAATTTCAAGACTATAAATTATGCAAA
ACTAGAAAAGACATTCGCGCTGTGGTTGCTACAAGAGTAATAATTCAACAAGATTTGAGA
GATGAACTAAGTTCTCCATGTTTCACTGTCACACATTACAAGATATTGTTGAATTTGATA
AAACTGAGCACAAGTCATTATTCGGCTATTCGTTCTACAGCACAATCAAGGTTATTTAGA
ATGTTAAACATTTATTGTTTTTCGTATAGAAGTATCGTTGATACAATGATAGAATATTTG
AAATTGGATCCAAATGAAAATCATGAGTCTTTCAAGGGTGCACTTTATGTAATAGGTACA
AATAGACGAAATCGTTTAATGCTTAAACACGATTGGGAAGTTGTTGAAAAATTGTGGATG
GCATTTTTAAAGACAAAACTTAGTGAAAAACTTTCTGTTGTTCGTCTTATGGAATCAATA
ACTGAAGGAGTGAATAATGAGTTTCAAACAATCGCTGTAGACATTGAAGTTAGTGACAAA
ATTGTTGATTTAGGTGTTAAAATGATGGTTGATAAAACAAAATTGCCTCAAAATTATCTT
GAACATGGTGCACTAAAACTTGCTGCGAAAAATGAAGAGAATCGTATTATTTATCATCGT
TTGACAGATGAAATATTGAAATATTCACAAGAAAAGACATTGCATTGGCGTTATAATTTA
CTCTGTAGTACATTGATCAACGACTTGATGCATCCAACGGCCTATTATTCACCATTTGTT
GCTGAAATATTTGTTAGGAATTTAATTCATGACTCTGCTTTTGAGAGATCAATTGCATTG
AAAATTTGCAATACAATCATGAAGCAACAAAAACGTGAACATATTAAAATTACTATTAAT
CCATACAAATTTAATTCAGCGAGTACAATTTTACCACCTGGCTTGCGTGAAGACAATAAA
TGGCTTCAATATGACATTGATAAAGTGCCGAAGAATCAACAGGAATGGGATGAGCCTCGT
TATGCATACAAAGTAAATGGCTTTTTCGGTTGGACACCAAAAGTTGAAATTTATGCACCA
AGTTCAATGCAACCGAATTTAGATAGAAGTTACGAAATGCTTAATGAACACGAAAAAATT
TTCTATAACTTTTTTAGCAATACACAAAATGTTGATAAATTATTCAACTACTGGAGTATG
GAAGAAAAAAAAGGAAAGGAAAAATTTCAACGTGCACGATTTTGGCTTATTAAACAAATT
TTTGATACTTTTGGAGATATTTTCTTGGATAATATTTTAGTACACGTAAAACCGCTAATA
AAAACAAAAAATGAAAGTTCGCATCGCTGTGCTGCAGAAATAATTGCTGGAATTTTAAGA
GGTGCTAAACATTGGAATTATGAAAAGACTAAAAAAATGTATGAGAAAATTATGCCGCTA
GTAAGACTAGCATTAGATAACATCACATCTGAAAGCGATACAATTTGGGGATGTGCATTT
GCCACAGCTTCAGAAGGAATTGATCCAAATAAACAATTCTTCCTTCACGAGACACTATTA
GAAAATCCTATTCGAGATGAGAAGAGCTTTTTTGATTGCTCGCGATTGTATTGTTTACAA
GGAGCATTTAACCAGCACGCTTGGAGAATGGTGTCAGTTGCACGTCGTCTTTTGACTTAC
TTGACTCCATTCCTTGATCATCCATTCCAAAACGTTAGAGAAAGAATTGGCAGCACATTG
ATTAATATTTTTGAAAATGATTTAAATTTCGGTGATGAACTTCCCGCTTGTTTGCCACAA
ATTCGACATTTACTTGAAATGAAGAAAAATGAATTGACTTTGCTAAAAACTGATGAAAAT
CAAAATCATGTCATTGAAACAAAAACACCATACGCTTCGGCAATTCGACTTTTTAAAACT
ATCGCGCAATGCATCATTGGAATAGTTAATAGATGCTCAAATGGTAATGAAGTCATTTAT
TATGAGCTTATATCTATAGGCGTTCGTCTTGAAAAATGCGAGTATGATGTGGAATTAGCT
GATAGTTGTTCTGTTCTACTCGCACTCATTTCACAAGCTTTCACTAAGCCTCAATGTGTG
AATGAGCTAATGAAAAAAATTGATGAAGTTTCTTATTATACTTCATGGTCTGCACGTTTA
TCAATTATTGACATGATGCAAGTTTTAGTTTTTAACAACATGCCTATTCTAATAAGTCGT
ACAGAATGGGTAGACAAGGTTCAAGAGATCGTTCTTCGATTACTTGAGGATTCAATTTGT
GAAGTTCGTGAGAAATCAGCTCAAGTTCTTGGTGGACTGATTCATTGCTCATTTTTGCCA
TCAACTGATAAGCTTTTAGAATTGTTTAAGAAAAAATGTCAGACAAAAGTTATCAAACGG
ACTCATACTGAAAAAAATATATCTGTTGAGCAAAACATTCGTATAAGACATGGTGGTGTT
TTAGGATTGTGTGCTTTTATAACCGCTTACCCATATGATATTCCACACTTTACTCCAAAC
ATATTTGAAGTCTTGTATCATCATCTTGATGATCCGCAACCGATACCAGCAACAATAAGA
AAGACATTAGCTGATTTTAAAAGAACTCATCATGATGGTTGGGATTTTCATCAATTGAAG
TTTACTGAAACACAATTGGCCGTCCTTAGTGATTTAACTGTACCCCCTTCCTATTTTAAT
TAA

>g2411.t1 Gene=g2411 Length=1800
MDLEADNERLESWNEKRVKVLGWKPQSEQFHNFYLPYYNEKSFDEESNRILQQIKQNLGL
AVATREIYPASGVYITKLMSYLKLYGFKFTKEEHVEFIKLIYEMIQIPNIDPAKLNKCCV
CLSQLLRKSKLLSPDDLQLEWRPLYRLVKIYLDKRSTKGDLIRFYPTLEQNIHFLIQLSV
QYIPLESNQEILNELLPQMQPLDIGKNDSVMEMLSLFLNPLSYELWFDYFMNLWNTYQYP
CWNSDIMNLIACTSAQTIGLIDWTPHIPIMFTRILRSLELPVSYKQIKSAKNQSLSADAS
ATWIISLIGPKYDTMKYLKNLFSTIESYLNPANSGKWVRMISDLLVQLVKYFQERLITER
YKKHPWKRAIPAEYCLRDCDIQEFVEVFKPIAMTAIYSKMQPYDIGKICKGLAELRPDLI
LPDILEKVSLTAELINEPHKFTSALSCLSSVASVVLREDNIPDSKDQIIPIMFSVLPGID
SNDFKKTSITLQFLITVSIMIPFVDCSQASSYHKLTEEQLIICEQTSQLEDFVLQFLDRI
FTLIESSSVESIRMEHNNLDHLKSKLESIAEALVQSAAHSILGQCSQEILDSASFKLVNY
IKNTALEPTVAGNAMSTLCRVFARVNGKNIYHSLIPFIVQLIDSHFDEGEDVYEIEKQND
DFLYYIQILCSLVRGDPTEIQLYSDEIISVIDKLLRCKCKASSCCGANMIGNFLTILNTV
QTNDIKTVPYAYEKPLKDFLPIKYWGRKMNREEKFNFFMPGERERALCEKIIHYYLLPIL
FKFETYIAGNLIISRDEMLLNLHIVSSVLKCNNFLENWDEEPMHLIDTIIDLSPMKLNIG
FTGLEVKMPDGSNVRKTIVDLLDKLQVKLLVESSDDIKSFKQLISLWEKVHHRINYSQSF
DNQLKNYQASKQFQDYKLCKTRKDIRAVVATRVIIQQDLRDELSSPCFTVTHYKILLNLI
KLSTSHYSAIRSTAQSRLFRMLNIYCFSYRSIVDTMIEYLKLDPNENHESFKGALYVIGT
NRRNRLMLKHDWEVVEKLWMAFLKTKLSEKLSVVRLMESITEGVNNEFQTIAVDIEVSDK
IVDLGVKMMVDKTKLPQNYLEHGALKLAAKNEENRIIYHRLTDEILKYSQEKTLHWRYNL
LCSTLINDLMHPTAYYSPFVAEIFVRNLIHDSAFERSIALKICNTIMKQQKREHIKITIN
PYKFNSASTILPPGLREDNKWLQYDIDKVPKNQQEWDEPRYAYKVNGFFGWTPKVEIYAP
SSMQPNLDRSYEMLNEHEKIFYNFFSNTQNVDKLFNYWSMEEKKGKEKFQRARFWLIKQI
FDTFGDIFLDNILVHVKPLIKTKNESSHRCAAEIIAGILRGAKHWNYEKTKKMYEKIMPL
VRLALDNITSESDTIWGCAFATASEGIDPNKQFFLHETLLENPIRDEKSFFDCSRLYCLQ
GAFNQHAWRMVSVARRLLTYLTPFLDHPFQNVRERIGSTLINIFENDLNFGDELPACLPQ
IRHLLEMKKNELTLLKTDENQNHVIETKTPYASAIRLFKTIAQCIIGIVNRCSNGNEVIY
YELISIGVRLEKCEYDVELADSCSVLLALISQAFTKPQCVNELMKKIDEVSYYTSWSARL
SIIDMMQVLVFNNMPILISRTEWVDKVQEIVLRLLEDSICEVREKSAQVLGGLIHCSFLP
STDKLLELFKKKCQTKVIKRTHTEKNISVEQNIRIRHGGVLGLCAFITAYPYDIPHFTPN
IFEVLYHHLDDPQPIPATIRKTLADFKRTHHDGWDFHQLKFTETQLAVLSDLTVPPSYFN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g2411.t1 PANTHER PTHR32170 PROTEASOME ACTIVATOR COMPLEX SUBUNIT 4 26 1799 0e+00
1 g2411.t1 Pfam PF16507 Proteasome-substrate-size regulator, mid region 318 809 0e+00
2 g2411.t1 Pfam PF11919 Domain of unknown function (DUF3437) 1715 1799 0e+00
5 g2411.t1 SUPERFAMILY SSF48371 ARM repeat 88 895 2e-07
4 g2411.t1 SUPERFAMILY SSF48371 ARM repeat 1152 1792 0e+00

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:0016504 peptidase activator activity MF
GO:0070628 proteasome binding MF
GO:0070577 lysine-acetylated histone binding 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