RnoINT0088578 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2790368-2790716:-
Coord C1 exon
chr3:2790588-2790716
Coord A exon
chr3:2790500-2790587
Coord C2 exon
chr3:2790368-2790499
Length
88 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
GTACCTTGCTCTTCCCATAGGGC
3' ss Score
10.63
Exon sequences
Seq C1 exon
GCACCACGGACTTTGAGTCTGCCTCTGCTGGGGGCTGGGAGGACATCAGTATAGGAAAGCTACAGTGGCAACGGGCTGAAGCCCAGGAGAGCGGGAAGCCTGCCAGGGATACCAACCGGAATGCGCCTG
Seq A exon
GTGAGGCCCACACTTCCCCACAGAGCCCCTCGGAGGAAGAGTCTGTAAATTACCTGAGCAGTGAGGGGGTACCTTGCTCTTCCCATAG
Seq C2 exon
GGCACTTCCTATCTCTGCGGAAGGCCTGGGGGCAGCTACGATCTGAGGCCCGGGCTCTCACACCTGCTCTGGGCCCCTCTGGCCCTCACTGTGAACTCCACATGACTTACTATTTTCACAGTCATCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.133
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(26.3=93.2)
A:
NA
C2:
PF0062918=MAM=FE(28.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAAGCTACAGTGGCAACG
R:
GAGTTCACAGTGAGGGCCAGA
Band lengths:
175-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]