BtaINT0118348 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43639824-43640093:+
Coord C1 exon
chr2:43639824-43639910
Coord A exon
chr2:43639911-43639996
Coord C2 exon
chr2:43639997-43640093
Length
86 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGA
5' ss Score
5.52
3' ss Seq
AAATTGTTTATGTTGTGTAGGGG
3' ss Score
3.61
Exon sequences
Seq C1 exon
CATGAATGTCAACATCATCATTCAAAAAACAAGAAGCATTCTAAGAAATCTAAAAAACATCACAGGAAGCGCTCCCGCTCTCGATCA
Seq A exon
GTAAGAAAGTTTATTTAAAATGGTACCATAAGTATATTGAAGTATTTGTTAGCATCATTATGAATAAAATTGTTTATGTTGTGTAG
Seq C2 exon
GGGTCAGATTCAGATGATGATGACAGCCATTCAAAGAAAAAAAGACAGCGATCAGAGTCTCGTTCTGCTTCAGAACATTCTTCTAGTGCTGAATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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:
CATGAATGTCAACATCATCATTCAAA
R:
AGCACTAGAAGAATGTTCTGAAGCA
Band lengths:
177-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]