RnoINT0090120 @ rn6
Intron Retention
Gene
ENSRNOG00000006209 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:RGD Symbol;Acc:1311050]
Coordinates
chr7:70574184-70576058:-
Coord C1 exon
chr7:70575012-70576058
Coord A exon
chr7:70574843-70575011
Coord C2 exon
chr7:70574184-70574842
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GAATTTGTTTTCTTTTACAGGTG
3' ss Score
12.3
Exon sequences
Seq C1 exon
GAGAGGGAGCAAGCCCCCAAATGTTCCACACTGTGTCCCCAGGGCCTGCCTCTGTCCGCCCTTCTTGTCGAGTTCCTCCTACAACTCCACTTAATGGGGGTCCTGGCTCCATTCCCCAAGAACCACCTTCAGTTCCCCAGGCCTTCCCTCCTCTAACAGGCCCTGCAGGGCTCTTCCCACCCCGGCTTCCTGATCCAGTTCCTTCTGCAGGCAGCAGCAGCCCTTGTTTCCTTCCAAGAGGCAATGCTCCCTCTCCAGCCCCACCTCCTCCATCTGCGATCAGCCTCAATGCCCCTTCCTACAACTGGGGAGCTTCCCTCCGATCCAACCTGGTGCCCTCTGACCTGGGCTCTCCTCCAGCCCCTCATGCCTCCTCTTCACCACCTTCAGACTCTCCTCTCTTCCACTGTAGTGATGCCTTAACACCTCCTCCCGTGCCCCCAAGCAATAATCTCCCTGGTCCCCCTGGTCCCCCTGGTTCCACCACTCAGCCACCAGTGTCTTCAGCCACTATGCACCTGCCCTTGGTCCTGGGATCCTTGGGAGGGGGCCCCACAGTGGAGGGGCCTGGGGCACCCCCATTCCTTGCTAGCAGCCTGCTCTCTGCAGCAGCCAAGGCCCAGCAACCCCAGCTGCCCCCTCCCAGCACTTTACAGGGCCGAAGGCCCCGTGCCCAGGCCCCCTCAGCTTCCCATGCATCACCCCGTCCCTCTCAGCGGCGTCCTCGCCGGCCCCCAACTGTCTTGAGGTTGCTAGAAGGGGGAGGCCCTCAAAGCCCTAGACGGAGCCGTCCTCGGGCCCCTGCTCCTGTCCCTCAGCCCTTTCCTCTCCCAGAGCCGTCCCAGCCTATTCTCCCCTCTGTGCTGTCCCTACTGGGACTCCCCACCCCTGGCCCTTCCCACTCGGATGGAAGCTTTAACCTTTTGGGGTCAGATGCACACCTTCCTCCTCCCCCAGCCCTCTCCTCAGGGAGCCCTCCCCAGCCCAGGCACCCCATTCAGCCCTCTCTGCCTGGGACCACCAGTGGCAGCCTCAGCAGTGTGCCAG
Seq A exon
GTATGAGTGTTAATGGGGTTTCTAAGCTTAGGCGTACAGCCATCCAGGGAATTGGGGTTGGGGGGAAAGTTTAGAGAGCATTGGTGGGTTTGGTGGTTTGTGTCAGAGATTGGGTTTGTGGATGCTAGAAAGAGGACTTTCCTGGAGCTGAATTTGTTTTCTTTTACAG
Seq C2 exon
GTGCCCCTGCCCCACCAGCTGCCTCCAAAGCCCCCGTAGTCCCCAGCCCTGTGCTTCAAAGCCCATGTGACAAAGGGCTGGGGTTGGGGGCAGGCCCAGCCTGCCCTCTGCCTCCCTTGGCTGGTGAAGAGGCTTTCCCTTTCCCCAGCCCTGAGCAGGGCCTGGCGCTCAGCGGAGCTGGCTTCCCGGGGATGCTGGGGGCCTTGCCTCTCCCTCTGAGTCTGGGACAGCCTCCACCTTCTCCATTACTTAGCCACAGTTTATTTGGTGTGCTGGCTGGGGCAGGGCAGCCTCCTCCTGAGCCCCTGCTGCCCCCACCAGGGGGACCTGGCCCTCCCTTAGCCCCAGGCGAGCCTGAAGGGCCTTCACTCTTGGTGGCTTCTCTGCTCTCACCACCCCCTTCTGACCTCCTCCCCCCTCCTGCACCCCCTAGCAACCTCCTTGCCTCTTTTCTGCCCCTGTTGGCCCTGGGCCCCACAGCTGGGGATGGAGAAGGATCTGCAGAGGGAGCTGGGGGTCCAAATGGGGAGCCATTTTCAGGTTTGGGAGACCTGCCCCCCCTACTATTCCCCCCACTTTCAGCCCCACCCACCCTCATAGCTTTAAATTCTGCGCTGCTGGCTGCCAGCCTGGATCCCCCCTCGGGGACACCCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006209:ENSRNOT00000008854:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.877
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
(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:
TCAGATGCACACCTTCCTCCT
R:
AAAGCCTCTTCACCAGCCAAG
Band lengths:
254-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]