RnoINT0088579 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2790138-2790499:-
Coord C1 exon
chr3:2790368-2790499
Coord A exon
chr3:2790263-2790367
Coord C2 exon
chr3:2790138-2790262
Length
105 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
ATACTAACTCCCTTGATCAGGCT
3' ss Score
5.09
Exon sequences
Seq C1 exon
GGCACTTCCTATCTCTGCGGAAGGCCTGGGGGCAGCTACGATCTGAGGCCCGGGCTCTCACACCTGCTCTGGGCCCCTCTGGCCCTCACTGTGAACTCCACATGACTTACTATTTTCACAGTCATCCCCAAG
Seq A exon
GTATTACCTGCCCCTGGCCCAAGACTGGATCCCTAGGAGCCCCCTGCATGGCAGACAGGGTCTGAGGATGACCCACCCCCCACCCATACTAACTCCCTTGATCAG
Seq C2 exon
GCTTCTTGGCACTGGCTGTGGTGGAGAATGGCTTCCGGGAGCTGCTGTGGCAGGCTCCAAGCAGCAGCAGTGGGGGCTGGACACTACAGAAGATTCTTCTTGGGGCACGGCGCCGGCCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(28.2=100)
A:
NA
C2:
PF0062918=MAM=FE(26.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACTTCCTATCTCTGCGGA
R:
CCGTGCCCCAAGAAGAATCTT
Band lengths:
242-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]