BtaINT0119267 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016952 | PSMD5
Description
Bos taurus proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 (PSMD5), mRNA. [Source:RefSeq mRNA;Acc:NM_001075693]
Coordinates
chr8:112100624-112102499:-
Coord C1 exon
chr8:112102308-112102499
Coord A exon
chr8:112100734-112102307
Coord C2 exon
chr8:112100624-112100733
Length
1574 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TATCTTGTTTTTCTTCACAGGAA
3' ss Score
11.16
Exon sequences
Seq C1 exon
GGTTTGTGAAGTTCTTTGGAAACCTGGCCATAATGGATAGTCCTCAACAGATCTGTGAGCGTTATCCTATCTTTATGGAAAAGGTCTTTGAAATGACAGAAAGTCAAGACCCCACCATGATTGGTGTAGCAGTGGACACGATTGGAATTCTGGGATCCAATGTTGAAGGAAAACAAGTTTTACAGAAAACAG
Seq A exon
GTTGGTATGACTTGTTTTGGTTTTCTTTAAGGCGCTCTTTTTTTAAAAATAAGAATTATTTGCTGCTATGCTTAAGTTCGTTGTAGAAGCTGCTTTTATAGGACAGTCTTCTTACCATGACCTGCGACTAACCCCTAAAAAGTCTCATAATTATTACTGAATTTTTTTTTTAGCTTGGCTGGATCAAATACTGTTTCCCTTCTACATCTTCTTAAGTAGTATTCATGGTACAGAGACTGTAGTCTGGAGTCAGAAAGACTTGGCTTTATGTCCCAGTTCTAACATTGATGTAGCTTTTTCAGCTTCTCGTACTCACTTCACTGCTCGCGGCTTCATTTTCCTCATATATAAAAACAGCATAACAGCTGTTAATATTTCTCAGGGTTGTTCATATTTAATGAAAAGACACGTTTGTTTAATATTTATATGTCAAGGAAGGTAAACAAAAATATGTTACAAGATTTTATGCCAAGAGTGATACTTTCTTGGCACATCCCTGGGTGTCTTGCAGGTACTGTGAATTCCACACACACAAAAGATGCACAACACTGTTAAAGCCCTTGTGAAATAGATGTTAAAAATTATTAGTACATGTGCTGTTGTGTTTCATAGCTAGTATCCATGTTATATGTCCTTTTCTAGGTGCTTGTACCTGTAACATACAATCCTGCTACAATAGTGCAGAGAACACACTGCTGTCACTCTCATTTTACAGATAAAGTAGCTGAAACTCAGAGAAGTTGAGAAAAGTTTTTCAGATCATTCAGATTGTGGGGCAGCTGCTACTCAAATCCAGGTCCATTGATCCCAGATCTCTGTACTTTTATTGCATTATGAGATCTCATTGTTCACTTAACACCCATTAGGATGGCTATTGTATTGTTGTTTTTTTAAACAAAATGAGTATTGACAAAATACCAAGGATGTGAAAAATGGGAAGCGTGTGCACATCTGGTGGGAATATAGAATGGTGCAGCTGCTGTGGAAACTATGGTGGTTCCTCAGAAAACTAAACCTGGAATTACCATATGACCCAGCGATGCCACTTCTAGGTATATACACCCAAAAGAATTGAGAGCAGGGACTTAAATAGATACACCTGTGCTCATTAATAGCATTGCTCACAGTAACCACAAAGGGTAGAAACAAGGCACTGATGAATGAGCAGATAAACAGACGTGGTGCATACACATCCAAAGGAGAGTCATTCAGTCTTTAAGAGGAATGCAGTTCTGACACCTACTGCAGCACGGGGAACCTTGAAGATACAGTGCTGAGTGAAATAAGCCAGCACAAAAGACAAATTCTGTGTGATTCCACTTACACAGCGTACCTGGAATAGTCAGATCACAGAGACAGAAAGTGGAATAGTGGTTACCAGGGGACATGGGGCAGCGGGGAAAGGGAAGTTGTTATTTAATGAGTGCAGTTTGAGGTGATAATAAAGCTCTAGAGGTGGGTGGGATAATGGTTGCACAACAATGTGAATGTATCCTTTTAAAAATGGATAAAGTGATAAATTTTACGTTACATGTATTTTACCACAATAAAAAGTATCTTGTTTTTCTTCACAG
Seq C2 exon
GAACTCGCTTTGAACGCTTGCTCATGAAAATAGGATATCAAGCAAAGAATGCCTCAACAGAGCTCAAGATTAGATGTTTGGATGCGTTGTCATCTCTTTTTTACTTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016952:ENSBTAT00000022548:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105084=Proteasom_PSMB=FE(12.7=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(7.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAAGTTCTTTGGAAACCTGGC
R:
AAAGAGATGACAACGCATCCA
Band lengths:
286-1860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]