RnoINT0088592 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2787433-2787744:-
Coord C1 exon
chr3:2787617-2787744
Coord A exon
chr3:2787542-2787616
Coord C2 exon
chr3:2787433-2787541
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GATTTAACCTTCTCTATCAGATT
3' ss Score
7.46
Exon sequences
Seq C1 exon
ACAAGGGTGAGTTGAGAGTGCTCCTGAGCAGTACCCAAGGACAGCTAGCTGTGTGGCACCGGGGTGGGCACTTGCGGGACCAGTGGCTACAAGTCCAGATTGAAGTGTCCAGCTCTGAGGAGTTCCAG
Seq A exon
GTGAGGTCCCAGGTGAGCTGCCCTCCCTCCCCTCTTCTGTACCTTCAGATACTCAGATTTAACCTTCTCTATCAG
Seq C2 exon
ATTGTTTTTGAAGCCACTCTGGGTGGCCAGCCGGCTCTAGGGCCCATTGCCCTTGATGATGTGGAGTACTTGGCTGGACAACACTGCAAGCAACCTACACCTAGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(25.3=100)
A:
NA
C2:
PF0062918=MAM=PD(18.1=81.1)
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:
CTCCTGAGCAGTACCCAAGGA
R:
ACATCATCAAGGGCAATGGGC
Band lengths:
170-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]