RnoINT0088591 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2787617-2787974:-
Coord C1 exon
chr3:2787840-2787974
Coord A exon
chr3:2787745-2787839
Coord C2 exon
chr3:2787617-2787744
Length
95 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TGCCTGCTCCCTGCTCTCAGACA
3' ss Score
9.52
Exon sequences
Seq C1 exon
GCCACTTCGCTTTCTTTGAAACCAGCGTGCTAGGTCCTGGGGGCCAGGCAGCCTGGCTGCGCAGTGAGCCACTGCCAGCAACTGCAGTCTCCTGCCTCCACTTCTGGTACTACATGGGCTTTCCTGCGCATTTCT
Seq A exon
GTGAGTGACTGGGCCCTGGGTGTAGGGGACCAGGGGCCCAGGTTGGGCACAAAGGTGTCTCCCAGGGGCCTGACCTGCCTGCTCCCTGCTCTCAG
Seq C2 exon
ACAAGGGTGAGTTGAGAGTGCTCCTGAGCAGTACCCAAGGACAGCTAGCTGTGTGGCACCGGGGTGGGCACTTGCGGGACCAGTGGCTACAAGTCCAGATTGAAGTGTCCAGCTCTGAGGAGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:25
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=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(27.1=100)
A:
NA
C2:
PF0062918=MAM=FE(25.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGCCTCCACTTCTGGTA
R:
CTGGAACTCCTCAGAGCTGGA
Band lengths:
175-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]