RnoINT0032252 @ rn6
Intron Retention
Gene
ENSRNOG00000003927 | Cd55
Description
CD55 molecule [Source:RGD Symbol;Acc:620651]
Coordinates
chr13:47137792-47139180:-
Coord C1 exon
chr13:47139046-47139180
Coord A exon
chr13:47137873-47139045
Coord C2 exon
chr13:47137792-47137872
Length
1173 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TACTTCTGCTCATATTACAGCAA
3' ss Score
5.68
Exon sequences
Seq C1 exon
AGAGACACAAGGTCCCAACTAAGACCCCACCAGAAGTTGATATTCCAAGTACAATGCCTCATGAATCCACCTTAATTAATTTTCCAAGTACAAGAGCCCCACTGTCTCATAAACCCACTACAGTTAAAGTTCCAG
Seq A exon
GTACAAGAGTCAAACCAACGTCTCACAAGCCCACTGAAGTTAAAGTTCCAGGTACAAGAGTCCCACCAACGTCTCAGAAACACACCACAGTTAATGTTCCAAGTACAAGAGTCCCAGCAACGTCTCAGAAACCCAGCATGGTTCATGTTTCAGATACAAGAGTCTCACCAAAACCTCAAAAACCTACCAAAGCAAATAACCCATCTACAGAGATCCCACCAACACCTCAGAAAGCCAACACAGCAGATGTCCCATCTACAGAGAGCCCACCAACACCTCAGAAAGCCAACACAGCAGTTGTCCCAGCTACAGAGATCCCACCAGCACCTCAGAAAACCAACACAGCAGTTGCCCCAGCTACAGAGATCCCACCAACACCCCAGAAAACCAACACAGCAGATGTCCCATCTACAGAGAGCCCACCAACACCTCAGAAAGCCAACACAGCAGATGTCCCAGCTACAGAGATCCCACCAGCACTTCAGAAAGCCAACACAGCAGTTGTCCCAGCTACAGAGACCCTACCAACACCTCAGAAAGCCAACACAGCAATTGTCCCAGCTACAGAGACCCCACCAGCACCTCAGAAAACCAACACAGCAGTTGCCCCATCTACAGAGATCCCACCAACACCTCAGAAAGCCAACACAGCAGATGTCCCAGCTACAGAAATCCCACCAACACCTCAGAACGCCAACACAGCAGATGTCCCATCTACAGAGATCCCACCAACACCTCAGAAAAGCAACACAGCAGATGTCCCAGCTACAGAAATCCCACCAACACCTCAGAAAGCCAACACAGCAGATGTCCCAGCTACAGAAATCCCACCAACACCTCAGAACGCCAACACAGCAGATGTCCCATCTACAGAGATCCCACCAACACCTCAGAAAACCAACACAGCAAAAGTTTCAGCCATAAAACCAGCAACAGCTCAGATGTCCCTCATATCAACTACTGTGTTTGCACAAACCCCACCAATAACCCAACATCCCACCACAGTTAATTCTTCTGCTGTACAAACTGCACAAACAACTCGAGGATTTGCCACAGCAAAACCTTCATTGACACAGAATCCGCCAGCAACACAAAGGCCCACCATTTCACACTTCTCAATGACCAAGGGTCTCCATACTGTTACACAAATATTTACTTCTGCTCATATTACAG
Seq C2 exon
CAACACAGCATGTACCTGTTTCCAAGACAACGGTACGTCATCCAACGAGAACATCTAAAGACAGAGGAGAGTCTAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003927:ENSRNOT00000005284:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.913 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
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCCAACTAAGACCCCACC
R:
CTGAATTAGACTCTCCTCTGTCTT
Band lengths:
206-1379
Functional annotations
There are 1 annotated functions for this event
PMID: 16503113
Transfection of isoform vDAF1, 2, and 3 cDNAs into CHO cells showed that these molecules are soluble forms secreted after glycosylation. Isoform vDAF4 and vDAF5 cDNAs included a part of and the entire intron 7 (HsaINT0031209) sequence, respectively, and the transfection of vDAF4 cDNA produced a large, glycosylated, membrane-bound form. vDAF4 has an Alt5 extending exon 7 nearly the entirety of intron 7 and/or it's an exitron of intron 7 retention.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]