BtaINT0118336 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43627732-43628373:+
Coord C1 exon
chr2:43627732-43627840
Coord A exon
chr2:43627841-43628308
Coord C2 exon
chr2:43628309-43628373
Length
468 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TTTCATTAAATGATTTTCAGCGT
3' ss Score
6.15
Exon sequences
Seq C1 exon
TTTTACTCCCAAAAAAGAAGAGGAAGAAAGCCAACCAGCAAAAAAAACGTATACGTGGAATACGAAAGAGGAGGCAAAGCAAGCATTTAAAGAATTATTAAAAGAAAAG
Seq A exon
GTATTTATATTGTAGATTTTTATATGATATATAGTATCTAGTAAATGAAATTATCCTTTAATGCAGTTAGTACCTTGATGCTTTTATTAAAAATACTAATCTTGTAAATAGCTTTGACTGAGAATGAACTAAATTTTTTAACTTTTTTTTAAAAACTTCCAACCAAAAAAATATATAAGGTACTATATAGCACATTCCATTTCAGTCTTTAAAGCTTTTATTCATAAAAGTTTTCTGTCTTCTAATCAGTAGTCTTAAGAAAGTATTAATATCCTGTTTAAATTAATGGTCTGTTTAAATTTCAGTTTTAAGTTTTCTTTTTAATCTATAGACAGTTACACACATTTGCCTTGTGTCAATAAATTATTTTTTAGACCTTTTTTAAAACTCCTGCAAAGGGAAGTGCTTGATGTTTGCAGTGAGTATTGTTTTGTGTGAAATTTTAACTTTTCATTAAATGATTTTCAG
Seq C2 exon
CGTGTACCATCTAATGCTTCATGGGAGCAAGCTATGAAAATGATCATTAATGATCCACGATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151:ENSBTAT00000064349:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.743 A=NA C2=0.318
Domain overlap (PFAM):
C1:
PF0184614=FF=PU(24.0=32.4)
A:
NA
C2:
PF0184614=FF=FE(42.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]