RnoINT0088589 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2788080-2788436:-
Coord C1 exon
chr3:2788346-2788436
Coord A exon
chr3:2788227-2788345
Coord C2 exon
chr3:2788080-2788226
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCTTCCAATTCCTTGCAGGGT
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTAGTGTTTGAGGCTATGGCTTCTGGCGTGGAACATTCCTACATGGCTCTGGATGACATTTCCCTCCAAGATGGGCCCTGTGCTCAGCCAG
Seq A exon
GTGAGCAGCTTGCTGTGGCCTGAGCAGCACCATTTCTCTACCAAACAACTCTGACTCCTGGCCCTGCCCACGAGTGCTCCTCACTGGGGCAGCTACTGTCACCTTCCAATTCCTTGCAG
Seq C2 exon
GGTCCTGTGACTTTGAATCTGGCCTGTGTGGGTGGAGCCACCTGCCTTGGCCTGGTCTGGGTGGGTACAGCTGGGACTGGAGCAGTGGAGCCACTCCATCCCGGTACCCCCGGCCTTCAGTGGACCACACTGTGGGCACAGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:23
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=0.080
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(17.8=90.3)
A:
NA
C2:
PF0062918=MAM=PU(28.3=94.0)
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:
AGTGTTTGAGGCTATGGCTTCTG
R:
GTGTGGTCCACTGAAGGCC
Band lengths:
219-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]