RnoINT0118356 @ rn6
Intron Retention
Gene
ENSRNOG00000052539 | Prpf40b
Description
pre-mRNA processing factor 40 homolog B [Source:RGD Symbol;Acc:1565411]
Coordinates
chr7:140968466-140969201:+
Coord C1 exon
chr7:140968466-140968531
Coord A exon
chr7:140968532-140969173
Coord C2 exon
chr7:140969174-140969201
Length
642 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
CCCTCCTCTTTCTTCGGCAGACG
3' ss Score
9.88
Exon sequences
Seq C1 exon
ATACCAGGAATGGTCCCTCCGATGATGCCGGGGATGCTGATGCCAGCCGTGCCTGTCACTGCAGCG
Seq A exon
GTAAGCACATGCTAGGGGCTAGCAGGAAGCAGGTCTGACTTGGAATGCATGGTCATGCACTCTGTTCTTTCCTTCCTCTCCTATCTCCCGTGGTCCCTGGCTGCGTTCCTCACATCCAAATCCTCGACAGCCACATACTCAGCAGTTGTGGTTTTCCACCTCTCACGTGGGCCGAAGGCAACATGATCTCTCTCCTCACTTCTCATGCCGCCCAGCACCCTTACAGAACACACTCATCCAGATACTCCTGCATCCTAGACATGCTAAGAGGCTTCTTCATATCACATCCTTTTCCTCTGGAAGGGGCAGTGGCACCTTCTTATGCTGCTGCTCAGTGTAGTGGAGTCTTAAGTTGGTGTCGAATTTTGACATCTACTGTGAAGAGATGGATCTCAGGAGTTGACTCAACAAAATACTCTTGTGGAAAATGGAGAGAGGAGCTACTATGCGATTCCCCCTGGGATCTCAAGAGTCACAGCCCTTGTGGGGTGGAGGGAATAGGACTGTTAGTCAGTCGGCAGAGATCCCTGGGAACAGGACACACAGATCCTGGCCTGGCCTGCTTCTCTATTCCCCCATGGCCTGGGTCCTGGGGGCCACTGGGCTTGGCCCCAACCCTTCCCCCTCCTCTTTCTTCGGCAG
Seq C2 exon
ACGGCTCCGGGTGCGGACACCGCCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052539:ENSRNOT00000091306:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.455 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
Zebrafish
(danRer10)
No conservation detected
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]