Gene loci information

Transcript annotation

  • This transcript has been annotated as 26S proteasome non-ATPase regulatory subunit 12.

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 g3360 g3360.t9 TTS g3360.t9 24836187 24836187
chr_3 g3360 g3360.t9 isoform g3360.t9 24836270 24837965
chr_3 g3360 g3360.t9 exon g3360.t9.exon1 24836270 24836560
chr_3 g3360 g3360.t9 cds g3360.t9.CDS1 24836490 24836560
chr_3 g3360 g3360.t9 exon g3360.t9.exon2 24836615 24836775
chr_3 g3360 g3360.t9 cds g3360.t9.CDS2 24836615 24836775
chr_3 g3360 g3360.t9 exon g3360.t9.exon3 24836839 24837053
chr_3 g3360 g3360.t9 cds g3360.t9.CDS3 24836839 24837053
chr_3 g3360 g3360.t9 exon g3360.t9.exon4 24837113 24837532
chr_3 g3360 g3360.t9 cds g3360.t9.CDS4 24837113 24837493
chr_3 g3360 g3360.t9 exon g3360.t9.exon5 24837616 24837819
chr_3 g3360 g3360.t9 exon g3360.t9.exon6 24837959 24837965
chr_3 g3360 g3360.t9 TSS g3360.t9 24838061 24838061

Sequences

>g3360.t9 Gene=g3360 Length=1298
ATGCCTGAAAAAATGGACACATTTAATCCAGCTATGCCTACTTATGAGGGTGGCAGGATC
ATTAAAATGGAAGTTGACTACAGTAGTACATGTGACGAAACAATTCCTCGCTGCAAAGAA
ATGGCAAAGAATGATTTGAAATTTAATGAAGCTCTAGAGACTTTGTTGTCATTGGAAAAG
CAAGCTCGAATTGGCTCAGATATGATGTCAAGTGAAGAAACGCTCACAATCTAAACAAGC
AATTGTGAAGATGGTACAAGAGTGCGTTACTTATGTTGATCAAACACCAGATAAGGAGAC
AAAAATTAAACTCATTGACACATTGAGAGCAGTTACAGAAGGAAAGATTTATGTTGAAAT
TGAACGAGCTCGTCTCACAAAAATTCTATCAGACATCAAAGAGGCTGATGGAGATATTCT
CGGTGCAGCGACAATTATGGAGGCATTACAGATTGAAACATATGGTACTATGGATAAAAG
AGAGAAAGTTGAGTTTATTCTTGAGCAAATGAGATTGTGCTTGGCTAAACACGATCTTGT
TCGAACTCAAATCATTTCAAAGAAAATCAATACAAAGTTCTTTAATGATCCAGAACAACA
AGACTTGAAATTAAAGTATTATGAACTGATGATTCTCTTAGATCAAGATCAATCATATAT
TAAAACTGCTCGCTATTATCTCGCAATTGCCGATTCTGAATGCATAACTAATGATATTGA
GAAGAGAAAACCTGTCTTTGTTAATGCTGTTTTATATTGCATCCTCTCACCGTACGATAA
TGAGCAAGTCGATTTGATGAATAATTTATACAAGAATAAATTTTTGGAAGAGATTCCATT
ATACAAGGAATTATTAAAACTCTTTCTCTGTAAAGAACTCATTAATTTTGATGCTCTCAA
TCAAGTTTATGGAAAAGAGTTGATGGGACTTAATGTCTTTAAAAAGGACACAGAACATGG
AAAAAAGAGTTGGGAAGAGTTGAAAAATCGTCTTATTGAACATGTTAAATGTTCGGATCA
TTGCAAGTTATTACACACGCATCCATATTTCAAGAATGTCAGAACTTTTGGATCTTGATG
AATTACAAACTGAAGATGTTCTCGCCAAGTTAGTAAATAATGGTACATTAAAGGTGAAAA
TTGATCGACCTGCAGGCATTATTTACTTCACACAGAAAAAGAGCCAATCAGAAGTCCTTA
ATGATTGGTCGAATGGTTTAAATGAGTTGATGGCATGTGTCAATAAGACTACACATCTTA
TTCAAAAAGAAGAGTGCTTGAATCAATTGTTAAAGTAA

>g3360.t9 Gene=g3360 Length=275
MVQECVTYVDQTPDKETKIKLIDTLRAVTEGKIYVEIERARLTKILSDIKEADGDILGAA
TIMEALQIETYGTMDKREKVEFILEQMRLCLAKHDLVRTQIISKKINTKFFNDPEQQDLK
LKYYELMILLDQDQSYIKTARYYLAIADSECITNDIEKRKPVFVNAVLYCILSPYDNEQV
DLMNNLYKNKFLEEIPLYKELLKLFLCKELINFDALNQVYGKELMGLNVFKKDTEHGKKS
WEELKNRLIEHVKCSDHCKLLHTHPYFKNVRTFGS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
g3360.t9 PANTHER PTHR10855:SF1 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12 1 251 0
g3360.t9 PANTHER PTHR10855 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12/COP9 SIGNALOSOME COMPLEX SUBUNIT 4 1 251 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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