RnoINT0032268 @ rn6
Intron Retention
Gene
ENSRNOG00000020884 | Cd6
Description
Cd6 molecule [Source:RGD Symbol;Acc:2312]
Coordinates
chr1:226853439-226853982:-
Coord C1 exon
chr1:226853842-226853982
Coord A exon
chr1:226853535-226853841
Coord C2 exon
chr1:226853439-226853534
Length
307 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
TCTCTGCCTCCCTCCCTCAGCCC
3' ss Score
10.03
Exon sequences
Seq C1 exon
AATCTTCTGTGCCTGTGAGCGTGAAGGATAAGGACTCTCAAAATTTGACACTTCTCATTCCCTGCATTGTCCTGGGAATTCTCCTTCTTGTCTCCCTCATCTTCATAGTTTTTCTTCTCTTGAAAGCCAAAGGACAATATG
Seq A exon
GTAGGTATAATGGTCCCAGAGCTTCTGGACAGAAAACGGCAGTTGTGAGGCATAGGCATGCCCCAGTACGTGAGGTGTGGAAGAGACGTGGTCCTGCAAGGACCACCCAGCTCAGGCTTAGGGAAACCTCCTGGTGGTGGGAAGGATTTTCCCAAAATGCCCAGTAGTGGAGGCTTCTTGGGAGAAACAAACTCTGTGTTTGTGTTGGGTGTGGGTAAAGCAAATGTGTCCTCGAACCTGGAACTTGAAAGGCTGGGAGACAGAAACAGTAAAAATGATACACAGGCTCTCTGCCTCCCTCCCTCAG
Seq C2 exon
CCCTCCCTACTTCAGTGAACCACCAGCAACTGTCCACTGCCAATCCAGCAGGGATCAACAACTACCATCCTGTCCCTATCACCATTGCCAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020884:ENSRNOT00000028347:7
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=0.364
Domain overlap (PFAM):
C1:
PF054546=DAG1=FE(30.5=100),PF151021=TMEM154=FE(47.0=100)
A:
NA
C2:
PF054546=DAG1=FE(20.8=100),PF151021=TMEM154=PD(16.0=48.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCTTCTGTGCCTGTGAGCG
R:
GGCAATGGTGATAGGGACAGG
Band lengths:
230-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]