BtaINT0118344 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43636711-43637016:+
Coord C1 exon
chr2:43636711-43636802
Coord A exon
chr2:43636803-43636899
Coord C2 exon
chr2:43636900-43637016
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
ACAAGATTTCTGTTTTTTAGGAT
3' ss Score
8.83
Exon sequences
Seq C1 exon
GATCAACTGCACTTGACCTTTTCAAGTTTTATGTTGAGGATCTTAAAGCACGTTATCATGATGAAAAGAAGATAATAAAAGACATTCTGAAG
Seq A exon
GTAAATATATACTATTAACTTTTAGTCTGGGGCATATTTTTTAAAATAATACTATGTTCTTTTTGTTACTAATATTAACAAGATTTCTGTTTTTTAG
Seq C2 exon
GATAAAGGATTTGTAGTTGAAGTAAATACTACTTTTGAAGACTTTGTGGCAATAATCAGTTCAACTAAAAGATCAACCACATTAGATGCAGGAAATATTAAGCTGGCTTTCAATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:24
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:
PF0184614=FF=PD(17.9=32.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAACTGCACTTGACCTTTTCA
R:
TCCTGCATCTAATGTGGTTGA
Band lengths:
183-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]