RnoINT0118355 @ rn6
Intron Retention
Gene
ENSRNOG00000052539 | Prpf40b
Description
pre-mRNA processing factor 40 homolog B [Source:RGD Symbol;Acc:1565411]
Coordinates
chr7:140980811-140981583:+
Coord C1 exon
chr7:140980811-140980948
Coord A exon
chr7:140980949-140981030
Coord C2 exon
chr7:140981031-140981583
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
3' ss Seq
GTCACACCTTTGCTCAACAGACA
3' ss Score
6.72
Exon sequences
Seq C1 exon
ACCAGTCCGGACAGTGAGACGGACCCCGAAGACAAAGCCGGTAAGGAGAGTGAAGACAGAGAACAGGAACAGGACAGGGAACCCCGGCAGGCAGAGCTCCCTAACCGTTCCCCAGGCTTCGGAATCAAGAAGGAGAAG
Seq A exon
GTGAATGGGAGGACCTGGCTTTCGCCCCAGCCTGTGACACACTGTCCAAGGGGCTCAGGTAAGTCACACCTTTGCTCAACAG
Seq C2 exon
ACAGGCTGGGACACATCGGAAAGCGAGCTGAGTGAGGGGGAGCTGGAGAGGCGAAGGCGGACACTCCTACAACAGCTGGACGACCACCAATGACCCCACGAGCTACTCTGCCTTGGGACTTCGTGAGGCAATGGCTTCAGGGTGGCCTCAGCATCTGCCTCAGACTCCTTCGTCTGTCTGGTCTGTGTCCACTTTCCCTACAGTAGCCCACCCCAACGCACTGCCGTGAGCGCCTCTCGAGGTTGCTCTTGGTGTTCAAGGGTCCCCTAGTTCTCAGACAACTAGTGCAGTCCTTGCCCTCAGCCCCAGACCAGAGACGGGCAGTCTATACCACATGGGGTGGGTGATGCCAGTAGATAGTGTGAGAAGGGGTCTCCCAGGAAAGAGACAGGCTGGTTGGACACAGCCTGGGTGGCCGAGGGCAGGGTCCTCACCCTCTAGCATCAGTGCCTGCTCTTGCCTGACCTGGTCCTGGGGCTCTACCACTGCTTCCTCTCCCTTGGGACCCGATGTATGTGTTCTGTTTTGTTTTTTAAATAATATTTATAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052539:ENSRNOT00000091306:24
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGGCTTCGGAATCAAGAA
R:
TGAAGCCATTGCCTCACGAAG
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]