RnoINT0032249 @ rn6
Intron Retention
Gene
ENSRNOG00000003927 | Cd55
Description
CD55 molecule [Source:RGD Symbol;Acc:620651]
Coordinates
chr13:47147492-47148975:-
Coord C1 exon
chr13:47148876-47148975
Coord A exon
chr13:47147578-47148875
Coord C2 exon
chr13:47147492-47147577
Length
1298 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TTCCTTCCCATCTCCATTAGGTA
3' ss Score
8.66
Exon sequences
Seq C1 exon
AAAGAGCATGCCCTAATCCTAGAGAACTGAAAAATGGTCACATCAACATACCAACTGACATATTATTCGGATCAGAAATAATCTTCTCATGCGACAAAGG
Seq A exon
GTAAGTTTCATCACTCTAAGACTCTATATTTAATTAACGAACAAAAAGAAATCGGGAGTTCCGTGAACATTAATAGATTTGTGGCCTGTCGTCACAGGTTGGTGGCTTCTAAAACAGTTCCTCATGTTGAGAGTGGGGTTCTTTGAGCAACGCACAGTGGTGCACATGTGTGTAAATGTTAAATGAAAGCTATTTTCTATACGCTACCGGAGGAAAAAAAAACCTCTAAAATACATAAATACCTCTCCCCAAAGAACCTTTGTCATGAGCCCATTGTGGTAATGTGTTACAAGCAAACTTAGTAGTTATAAGTAAACTTGGTAATGTAGACCAGGGAAAGGTGTTTATACTTCTAATTTCTCTAGATATTAGATTCCAATTATATGCAAATCTAAATGTGATTAGTGTAGAGACCACTGAAATATGTTGATGGTACAAAAATAACAATCCTCGAAGTTAGAAATCAAACTAATTTTCAACTGACTTAAATATTAATTTGCATCTCAGTTTTACTATATGCAAATAAACTGTTACATCATGGGCTAAAAAGAAAGTCTAGTGTGGAAATGCCATCCTAGCAGCAAGTTCTTAGGGCTCTACTTTCTTCATGTAGGAGAAGGAAGTTCTTTAAGTGTCATCAGCGACATTTCCTTTCTATGTTCTGAGTTCAGTCTCCACCCTTCGCCCCTTATGACAGAAATAGTCAGCACTGGGAGGCTCTAGTGGATTTACAAGGGCCCAGGGGTTGGGAAGGAGTAGGCAGAGAACCAGGGGGGTATTAGAAAACGGGGACAGGGTGGGGAGGGGATTTGGGTTTGATCAAAACACTTTATAGATATGCAGAAAGTTCTCAAAAAACGTTTCCCTACAAACCAAGGGAAACAAGGTGCTCTTTTTTTTTTTTTTTTCTTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTCTACCACTGAGCTAAATCCCCAACCCCGGTGCTCTTCTTTTAGAACTTAGAGTGAAAGATTTCATTACATGATTTTAGACTGTTTTTGTGTTGTGTGTGCATTTTCAATGCTGCAAGCTGAAAGAAGCATGTTGCAAGTCTGAAGTCTTGCCGGTTCGATATCCTATCTGTGAACTAAAAGTTTTTTTCTTTTTTAATTTCCATCTAGATGCTTTATCAAAACTGTCATTTTTTTTTTTTCATCTCCATCTTCTGGTAGAGTAAATCTTTTTAAAAGGAAGTTCTGGAGAATTTAAAAGATAAGGCTTCTGCTGTGAATATAACGGCCTTCCTTCCCATCTCCATTAG
Seq C2 exon
GTACAAGCTGGTCGGTGTAACTTCTACATTCTGTTCTATTACGGGGAATGCTGTGGACTGGGATGACGTATTTCCAGTGTGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003927:ENSRNOT00000005284:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PU(51.7=88.2)
A:
NA
C2:
PF0008415=Sushi=PD(46.6=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
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:
AGAGCATGCCCTAATCCTAGAGA
R:
TGTGCACACTGGAAATACGTCA
Band lengths:
183-1481
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]