BtaINT0118354 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30382349-30383095:-
Coord C1 exon
chr5:30383031-30383095
Coord A exon
chr5:30382514-30383030
Coord C2 exon
chr5:30382349-30382513
Length
517 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TCCCACCCTGTCCACCCTAGTGC
3' ss Score
7.86
Exon sequences
Seq C1 exon
GCTGTCCCCTCCAATGCTTCGTGGGAACAGGCCATGAAGATGGTGGTCACTGACCCCCGTTACAG
Seq A exon
GTAGGCCTGGGCAGGCCCTCCAGACATTGTTCATGAGGGTGGCTGATCCACGGATTTCCTAAGAAACCCTGACGGGGTCAGAGTGAGGAGAGTGATAGCTGGGTGAGCGTGCTGGGGAAGAGAAGCTGAAGAGCCTCCAGGAGGAGGGGAAGGGGATCATTCAATAAATGCTTGTTGAATTGAATTGATTTGAATTGAATTAATTGGGGAAAGGGGTTGGATAGGGCAGAGGCCTGACTGCAACTTGAGAACCCATAGCAAAAGGGCTCAGTATTAATAGTGTCTTAAGAGGCCTGTCTTGTTCCCTCATTGTCACCCCTCCCCATATGCCAGAGACCAACCTATCTTGCTTCCCTGTGCCCTTGGGGCCACTGCAGCCCGCTGTGCCCATGCGTGGACATTCAGTCAGTTCTGTGAGACCCATCCCCAGTGTGCCATGACCCTACTTTGTGGGCTGTGCGTTGTGGTTCAGGCTGACTCGTCTGTCCCCACCAAACTCCCACCCTGTCCACCCTAG
Seq C2 exon
TGCCTTGCCCAAACTGAGTGAGAAAAAGCAGGCATTCAATGCCTACAAAGCGCAGCGGGAGAAGGAGGAGAAGGAAGAGGCCCGGCTAAGAGCCAAGGAGGCCAAGCAGACCTTGCAGCATTTCCTGGAGCAGCATGAACGCATGACCTCCACTACCCGCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=0.893
Domain overlap (PFAM):
C1:
PF0394210=DTW=FE(22.6=100),PF0184614=FF=FE(42.0=100)
A:
NA
C2:
PF0394210=DTW=PD(55.9=92.9),PF0184614=FF=PD(30.0=26.8),PF0184614=FF=PU(44.0=39.3)
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:
GCTGTCCCCTCCAATGCTTC
R:
CGGTAGCGGGTAGTGGAGG
Band lengths:
230-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]