RnoINT0043146 @ rn6
Intron Retention
Gene
ENSRNOG00000030790 | Ctnnd1
Description
catenin delta 1 [Source:RGD Symbol;Acc:1305643]
Coordinates
chr3:72009709-72010443:-
Coord C1 exon
chr3:72010329-72010443
Coord A exon
chr3:72009797-72010328
Coord C2 exon
chr3:72009709-72009796
Length
532 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAA
5' ss Score
2.83
3' ss Seq
GGTTTTATGTTTGTCTCTAGGTG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GAATCGCTCAGAAAAAGAAGTCCGGGCAGCAGCTCTTGTCCTGCAGACAATCTGGGGCTATAAGGAGCTTCGGAAGCCACTGGAAAAAGAGGGGTGGAAGAAATCAGACTTCCAG
Seq A exon
GTGCAATAACTCTCGACTGAAGCTTTGACTTTTCTTCTCTTTTGTTCCTTGGCTAGTGCCTCTGTCTTTGGTTAGATTGTAAAGACTTGCCACACTACTTTTTAATCCAGTTTATTATAAACTGTGGTGCTCACAGTTTATTTTTGCTGAAGTAGTTCTTCTCTCTCAGTGTTGAACATACAGTAGATGCTGTTGGTAGAGAGCAGTGATAATGTATGGCCACTGTGAGCTTCCTGTCTACTCAGACCCTTCATGTGCTTACTGTTCTCTGCTCCCTCTAGCTCTGTCCTCCAAGTACTAGCAGTGTAGGTATGCACTACTGCCTAGACTCAGTCTTTTCTGAGGAGTTACTGTCAGTAGGCACCTAGCATCTAAGCCCTTCAGGAAGAATGTGTGAGGGCTAAGGCAGGTGAGCATGGGGAAGGAAACCCATGCTCTTTCAGGGTTCCTGAAGTGGGAGGTACATGGTTAGGAGAAGGGGCCAGGAATCTCTCCAGGTTTCTATGACACTGGGTTTTATGTTTGTCTCTAG
Seq C2 exon
GTGAATCTAAACAATGCATCTAGAAGCCAGAGCAGCCATTCATATGATGATAGCACTCTCCCCCTCATTGACCGGAACCAAAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030790:ENSRNOT00000064009:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
TCGCTCAGAAAAAGAAGTCCGG
R:
GATTTTTGGTTCCGGTCAATGAGG
Band lengths:
198-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]