BtaINT0118349 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43639997-43640237:+
Coord C1 exon
chr2:43639997-43640093
Coord A exon
chr2:43640094-43640175
Coord C2 exon
chr2:43640176-43640237
Length
82 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAC
5' ss Score
4.14
3' ss Seq
TTTCTTTTCATGCTGCTTAGAGA
3' ss Score
5.75
Exon sequences
Seq C1 exon
GGGTCAGATTCAGATGATGATGACAGCCATTCAAAGAAAAAAAGACAGCGATCAGAGTCTCGTTCTGCTTCAGAACATTCTTCTAGTGCTGAATCTG
Seq A exon
GTAAACATAATTTTAACTTGATTAAAGTCGTTGGCATTTGGATGTCCTCAAATTCTGACACTTTTCTTTTCATGCTGCTTAG
Seq C2 exon
AGAGAAGTTACAAGAAATCAAAAAAACATAAGAAGAAAAGCAAGAAGAGAAGACATAAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
GGGTCAGATTCAGATGATGATGACA
R:
TGATTTATGTCTTCTCTTCTTGCTTT
Band lengths:
159-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]