RnoINT0088590 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2787840-2788226:-
Coord C1 exon
chr3:2788080-2788226
Coord A exon
chr3:2787975-2788079
Coord C2 exon
chr3:2787840-2787974
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CCCCACCCTTTCATCTCCAGGCC
3' ss Score
10.65
Exon sequences
Seq C1 exon
GGTCCTGTGACTTTGAATCTGGCCTGTGTGGGTGGAGCCACCTGCCTTGGCCTGGTCTGGGTGGGTACAGCTGGGACTGGAGCAGTGGAGCCACTCCATCCCGGTACCCCCGGCCTTCAGTGGACCACACTGTGGGCACAGAAGCAG
Seq A exon
GTACATACTGGCTGGAGCAGGGCCTGGGCTGGTGCCACCTCACAAAACTGGGCAGTGCTCACCCAGCTTCTCTTGTTAGAGATACCCCCACCCTTTCATCTCCAG
Seq C2 exon
GCCACTTCGCTTTCTTTGAAACCAGCGTGCTAGGTCCTGGGGGCCAGGCAGCCTGGCTGCGCAGTGAGCCACTGCCAGCAACTGCAGTCTCCTGCCTCCACTTCTGGTACTACATGGGCTTTCCTGCGCATTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.3=94.0)
A:
NA
C2:
PF0062918=MAM=FE(27.1=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:
TTTGAATCTGGCCTGTGTGGG
R:
CAGAAGTGGAGGCAGGAGACT
Band lengths:
242-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]