RnoINT0088577 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2790588-2791001:-
Coord C1 exon
chr3:2790822-2791001
Coord A exon
chr3:2790717-2790821
Coord C2 exon
chr3:2790588-2790716
Length
105 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
GCAGAAGACTGTTGTTGCAGGCA
3' ss Score
-0.76
Exon sequences
Seq C1 exon
GTATGTCCACCCTGCAGTCATCACTTTCTGGACCTGTGCCATTGGCCCTCTATCCCCAGACATCCATCAAGCGAACCTGTGAGCCAGGACATCTCTCCTGTGACGAGCTGTGTGTGCCCCCGGAGCAGCTGTGTGATTTCCAGCAGCACTGTGCCGAAGGCGAGGATGAAGAGAAGTGTG
Seq A exon
GTGAGGCCAGTCAGAGCCTGCCTGGGTTGGTTCTTCACGGTTATGGGGCACAGGCAGGCCAGAGAAGGCTTCGCTGCCTTCCAGAGCAGAAGACTGTTGTTGCAG
Seq C2 exon
GCACCACGGACTTTGAGTCTGCCTCTGCTGGGGGCTGGGAGGACATCAGTATAGGAAAGCTACAGTGGCAACGGGCTGAAGCCCAGGAGAGCGGGAAGCCTGCCAGGGATACCAACCGGAATGCGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=59.0)
A:
NA
C2:
PF0062918=MAM=PU(26.3=93.2)
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:
TCCACCCTGCAGTCATCACTT
R:
CGTTGCCACTGTAGCTTTCCT
Band lengths:
248-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]