RnoINT0088588 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2788346-2788648:-
Coord C1 exon
chr3:2788530-2788648
Coord A exon
chr3:2788437-2788529
Coord C2 exon
chr3:2788346-2788436
Length
93 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GCCGGCTCTGTACCCTGTAGGTA
3' ss Score
8.22
Exon sequences
Seq C1 exon
GCACCTTGAGGGTCTTCGTGGAAGAGAGCACAAGGCGCCAAGAGCTCAGCATCAGTGGCCATGGTGGATTTGCGTGGCGCCTAGGCAGCGTGAATGTACAGGCTGAGCAGGCCTGGAAG
Seq A exon
GTAAGTACCTGAGTGGAGAGAAGAAAGCCACCTCACCTTCAAGGTTTGCCGGGACCAGCCTGCAGGATGTGTGGCCGGCTCTGTACCCTGTAG
Seq C2 exon
GTAGTGTTTGAGGCTATGGCTTCTGGCGTGGAACATTCCTACATGGCTCTGGATGACATTTCCCTCCAAGATGGGCCCTGTGCTCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:22
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=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(24.8=100)
A:
NA
C2:
PF0062918=MAM=PD(17.8=90.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGTGGAAGAGAGCACAAGG
R:
GGCCCATCTTGGAGGGAAATG
Band lengths:
182-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]