DreINT0017322 @ danRer10
Intron Retention
Gene
ENSDARG00000079639 | PRRC2B
Description
proline-rich coiled-coil 2B [Source:HGNC Symbol;Acc:HGNC:28121]
Coordinates
chr5:71263210-71263811:-
Coord C1 exon
chr5:71263724-71263811
Coord A exon
chr5:71263379-71263723
Coord C2 exon
chr5:71263210-71263378
Length
345 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TTGGTGTGTGTGTGTTTCAGGGA
3' ss Score
11
Exon sequences
Seq C1 exon
GTCTCCATGAGGAAGTGGATTACAGTGAGAAACTGAAGTTCAGTGATGATGAGGAAGATCACGCCCCGCGGGAGAAGAGCAAGATCTG
Seq A exon
GTGAGATTGGCTGTGCTTCTGTCTGTGTCCAGGAGAATTGACTATATTCATCAGGGATCAGATTGATAGATCTCTTTGTCTTTGTGTTAGTGTGGTTGTTATCTTGGTTCTGTTATTAACATGTTTGTTATGAAACTGTTGTGATGGTAAATTATCAACTGAATATTTATTTACTAATGCTGCCATGAATACAGCCAATGCTGTTGATATGGCATTAAATAAGTGTGTAAGCGAGCATGTGTGTGTGTAACTGTAACTGTGTACGTAAACATAAGTAAGAGTGTGTGTAAGTATAAGTGTTTCTGTGTGCGCTTCACAGCATGTTTTGGTGTGTGTGTGTTTCAG
Seq C2 exon
GGACGACTGGGATCATCATCATCACCATCACCATCTTCAGGGCCAGCATTCCTCTCAGAGTTCAGGAGACGGAGCGTTCCCCCAGGAGCCCGAAGACGAGCCGTATTTACGCCAGCAGGAGCCTCCGGCCTCCAGGAAGACCAGCACACGCTTCCCTGCAGAACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079639:ENSDART00000112955:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.933 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATGAGGAAGTGGATTACAGTG
R:
CTGTGGTTCTGCAGGGAAGC
Band lengths:
254-599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]