RnoINT0032264 @ rn6
Intron Retention
Gene
ENSRNOG00000020884 | Cd6
Description
Cd6 molecule [Source:RGD Symbol;Acc:2312]
Coordinates
chr1:226850046-226850578:-
Coord C1 exon
chr1:226850507-226850578
Coord A exon
chr1:226850298-226850506
Coord C2 exon
chr1:226850046-226850297
Length
209 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTCCCTTTTCCTGGCCTAGGAC
3' ss Score
10.15
Exon sequences
Seq C1 exon
ATTCCCAGAGGCACCGGGTCACAGAGGAAGAAGCCCAACAGAACAGGTTCCGGATGCCACCCTTGGAGGAAG
Seq A exon
GTGAGTCCAGGGGGGGAGGTCATGGAGAAGGGAAGCAGGGTGTCAACCTTGCCTCCAAGCTCAGTGGCTAATCTCACCTTAGGATGCATTAGCAACAACTTCCCTCAACTAGTGTCTCGGCCTAAACACTCCCACACGTAGTAAGTTACGTTGGGAGCCTAGTTAAAGCTCTCTTGCCTCCTTGCTTTTCTTCCCTTTTCCTGGCCTAG
Seq C2 exon
GACTTGAAGAGTTGCACGTTTCTAACATCCCAGCTGCTGACCCCAGACCCTGTGTGGTGGATGCCCCCTCTCTGGGCTCTCAGTACCACACGAGGAACAACAGTGACTCCAGCACATCCTCTGAGGAGGGTTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAACTCCCAGGTGTTTTCCGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCAGGCAATGTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020884:ENSRNOT00000028347:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.987 A=NA C2=0.982
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
ACCGGGTCACAGAGGAAGAAG
R:
AAACATTGCCTGAGAGCCAGC
Band lengths:
308-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]