RnoINT0088584 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2788959-2789388:-
Coord C1 exon
chr3:2789252-2789388
Coord A exon
chr3:2789179-2789251
Coord C2 exon
chr3:2788959-2789178
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTGTCACTTTCTACCCTCAGTTG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GGACACTGTGCTTGGCCATGAGGAGGGAGGGGGAGGAAGACACACTACTGTGGTCCCGGTCAGGCACCCACGGCAACCGCTGGCACCAGGCTTGGGTCACTCTTCACCACCAGCTGCAGCCCAGCACCAAGTACCAG
Seq A exon
GTGAGGGTAGCCTCAGCACTTGGTAGGTGGTGTAGGGTTGGCCCCCCTGCCAATTGTCACTTTCTACCCTCAG
Seq C2 exon
TTGCTGTTTGAAGGCCTCCGGGATGGGTACCATGGCACAATGGGCCTGGATGACATGGCTGTGCGGCCTGGCCCCTGCTGGGCCGCCAAGAGATGTTCCTTTGAAGACTCTGACTGTGGCTTCTCCCCAGGGGGCTGGGGGCTGTGGACACGCCAGAATAATGCCTCAGGCCTTGGTCCTTGGGGTCCTTGGATAGACCATACCACAGGGACAGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(29.0=100)
A:
NA
C2:
PF0062918=MAM=PD(17.4=36.5),PF0062918=MAM=PU(26.8=56.8)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCTTGGGTCACTCTTCAC
R:
GGGAGAAGCCACAGTCAGAGT
Band lengths:
178-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]