RnoINT0088580 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2789946-2790262:-
Coord C1 exon
chr3:2790138-2790262
Coord A exon
chr3:2790058-2790137
Coord C2 exon
chr3:2789946-2790057
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTCCCCTATCTGCCTAAAGCTG
3' ss Score
7.03
Exon sequences
Seq C1 exon
GCTTCTTGGCACTGGCTGTGGTGGAGAATGGCTTCCGGGAGCTGCTGTGGCAGGCTCCAAGCAGCAGCAGTGGGGGCTGGACACTACAGAAGATTCTTCTTGGGGCACGGCGCCGGCCATTCCAG
Seq A exon
GTGAGGCTGGCAGTCCAAGATGGGGAATCGGTACCGGGCTAGCCCCTAACTGACAGTCTTTCTCCCCTATCTGCCTAAAG
Seq C2 exon
CTGGAGTTCGTCAGTCTGGTGGACTTGGATGGCCCTGGCCAACAGGGGGCTGGGGTGGATAATGTGACCCTGAGAGACTGCAACCCCATGGTGACCACTGAGAGTGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.184
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(26.3=100)
A:
NA
C2:
PF0062918=MAM=PD(17.9=73.7)
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:
CTGTGGTGGAGAATGGCTTCC
R:
GTCACATTATCCACCCCAGCC
Band lengths:
178-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]