RnoINT0088593 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2786892-2787541:-
Coord C1 exon
chr3:2787433-2787541
Coord A exon
chr3:2787059-2787432
Coord C2 exon
chr3:2786892-2787058
Length
374 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
GATGGCCTCTCTGCCCTCAGGTG
3' ss Score
11.61
Exon sequences
Seq C1 exon
ATTGTTTTTGAAGCCACTCTGGGTGGCCAGCCGGCTCTAGGGCCCATTGCCCTTGATGATGTGGAGTACTTGGCTGGACAACACTGCAAGCAACCTACACCTAGCCAGG
Seq A exon
GTAAGCACTGGCTTCTCGGATGGCCGGACTTGCCCTGACCCTGCCAGGCTTAGGCTGGTGGTCCAGTGAGCTGTAAATGCCCTGCTTGGGAAACCAGCTGAACCAAGACTGTGTTCATGGGCTGGGCATAGGGACTGTATCAGCTTTTACTGTCCCCTCCTGGGCAAGAACTCTCTTGAAGGAACTGCCAAGTTAAGCCAGAGACCACAATGGGTTTGGCAGTCAGTGGCTACTGTCATGCCCAGAGGAAAAGGGGACAGGCTTGCAGCATTGTGCACACACGTCAACAAGGAGGCTGGGGCCTGCAAGCACTGGAGAGGTCAGGCAGCCCTAGGCTCATCTGTGGAGGGTTGAGATGGCCTCTCTGCCCTCAG
Seq C2 exon
GTGGAGTGGCAGCACCCGTGTCTGTGCCGGTTGCAGTCGGAGGAGCCCTCCTCCTCTTCCTGTTGCTCCTGGGCCTTGGAGGTTGGCACTGGCTGCAGAAGCAGCACCTCCCCTGCCAAAGTACAGATGCAGCAGCCTCTGGCTTTGACAATATCCTCTTCAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.1=81.1)
A:
NA
C2:
NO
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:
TGTTTTTGAAGCCACTCTGGG
R:
GCATTGAAGAGGATATTGTCAAAGCC
Band lengths:
273-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]