RnoINT0088597 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2792594-2792893:-
Coord C1 exon
chr3:2792763-2792893
Coord A exon
chr3:2792679-2792762
Coord C2 exon
chr3:2792594-2792678
Length
84 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
AAGGACTGTTCTCTCTCCAGGTG
3' ss Score
10.21
Exon sequences
Seq C1 exon
ATGTCGCTGAGCTGCGGCTGGATCTGACCCATGGTATGGAGACACTGACTCTATGGCAGAGCTCGGGACCTTGGGGTCCTGGCTGGCAGGAACTAGCAGTGAACACTGGCCGAATCCAGGGTGACTTCAAA
Seq A exon
GTAAGCAGGGTGGTCTGCCAGGCTGGGCACTGTGGGGAGGGTCTGGGTACTGGACCTTGATCCTAAGGACTGTTCTCTCTCCAG
Seq C2 exon
GTGACATTTTCTGCCACTCGAAATGCTACACACAGGGGCGCTGTGGCCTTGGATGACATGGAGTTCTGGGACTGTGGTCTGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(27.4=100)
A:
NA
C2:
PF0062918=MAM=PD(16.6=89.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGGATCTGACCCATGGTA
R:
CTCCATGTCATCCAAGGCCAC
Band lengths:
179-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]