RnoINT0030853 @ rn6
Intron Retention
Gene
ENSRNOG00000027392 | Ccdc187
Description
coiled-coil domain containing 187 [Source:RGD Symbol;Acc:1565512]
Coordinates
chr3:3728448-3729249:-
Coord C1 exon
chr3:3728892-3729249
Coord A exon
chr3:3728620-3728891
Coord C2 exon
chr3:3728448-3728619
Length
272 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
AAGGCCTCCATGCTCTGCAGGTC
3' ss Score
6.55
Exon sequences
Seq C1 exon
TACAAGCAAGCCCGGCTGCAGGCACTGGAGACCATGGCTGAGGCCCTTGAGCAGCGTATTGACATTCTATCCAACAAGCTACACAAGCCGACATTGCCTGACACAGCTGGTGACCTGGCCTCGGACGTGCTGCCCTTGCACCCCAGCACAGCACCCAGCAGCCCCACACTTATTCCTCCCTCATACCTCAGAACCGTAATGTCGAAAGGCGGTAGAGAAACCTCCCAGGACTTGGTGGATGTGCAGACCAATCCCCTTCTCCTCAGCACCTACTTGCAGGATGGTGAGATGCCATTGAGGCCCAGCTGGGAACTGCAGAACCCAAACCTGAGGACTCACACTGAGAGCCAGCCCCAAG
Seq A exon
GTAGGGCTTGGCAGTGGGTGTCATGTCTGTTGAATTACCTTTGGGCTTGGAGCAATGGGGCCCCAGTCAGTGTCTTGTTTGGAGAGCAGGGTGGTTGCTGCCCAGACAGTGAGGGTGGTGACAATAGCTGATGCTTCCTGGGTGACATATGGCACAGGCCATAGCAGTCTCATCCTGTGTTGGGGGAGGGGAGGCTCTTTCTGAAGCCTGCTGCCTACCCGCCCTACTTCCCTCAAGGGCAAGAAGGCCAGCAAGGCCTCCATGCTCTGCAG
Seq C2 exon
GTCCTGTTTCTAGCACTCCTGCCTCAGTGTCTCAGATCGTCCCTCACACTCAGCCTTGCCCTGCTGGCTCATCAAGTCGTGAGGCTCTTTCCAAAGACGCCATAGAGGGGCTGGAGAAGAAGTTGCAGAGAGAGATGGCTAACCTCCAGGCCCTCGGCGCCTGCATGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027392:ENSRNOT00000036178:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.808 A=NA C2=0.862
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCCCCACACTTATTCCTC
R:
GCGTCTTTGGAAAGAGCCTCA
Band lengths:
301-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]