RnoINT0032265 @ rn6
Intron Retention
Gene
ENSRNOG00000020884 | Cd6
Description
Cd6 molecule [Source:RGD Symbol;Acc:2312]
Coordinates
chr1:226849703-226850297:-
Coord C1 exon
chr1:226850046-226850297
Coord A exon
chr1:226849808-226850045
Coord C2 exon
chr1:226849703-226849807
Length
238 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TAACTAGCTCGTGTCTCCAGCAG
3' ss Score
3.7
Exon sequences
Seq C1 exon
GACTTGAAGAGTTGCACGTTTCTAACATCCCAGCTGCTGACCCCAGACCCTGTGTGGTGGATGCCCCCTCTCTGGGCTCTCAGTACCACACGAGGAACAACAGTGACTCCAGCACATCCTCTGAGGAGGGTTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAACTCCCAGGTGTTTTCCGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCAGGCAATGTTTTCAG
Seq A exon
GTAACCGTGTATCCTTCCAAGCTCCCAACCCTGTGTCCAACCTACCCAGAAGAGGTACAGATCCAAACCCTGAGCTGCTGGCTGTGTGACCTCGGACAAGTCTCCTCCCCTCTCTGGGCCTTCATTTCCTCATTCGTCCAGTTTCAGACTTGGCTCTCCTGAGTCTTCAAGGCGTCTGCCTCTGGTAGTTTGCACACAGCCTGGCTCCTGGCAGAGAGTAACTAGCTCGTGTCTCCAG
Seq C2 exon
CAGGGGCCTCGGCCGATGACAGCTCCAGTACCTCGTCTGGGGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGTGGAACAGTTTGAATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020884:ENSRNOT00000028347:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.982 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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAACATCCCAGCTGCTGACC
R:
TGGCTGGAAGTTCTGGTACCA
Band lengths:
296-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]