RnoINT0088576 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2790822-2791170:-
Coord C1 exon
chr3:2791086-2791170
Coord A exon
chr3:2791002-2791085
Coord C2 exon
chr3:2790822-2791001
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
TGACTTTAGTTCCGTTATAGGTA
3' ss Score
5.4
Exon sequences
Seq C1 exon
ATCCTTCTTGCTGGGGAGACTGGTCCAGGAGGCTTCGTGGGCCTAGACGACCTTATCATGTCCAACCACTGCATACTTGTTCCAG
Seq A exon
GTGATCTGCCCAAGGCCCTGCCCTGGCCTGCCCAGCAGGAGCAAGGCTGTCACCTGCTCTGCCCTGACTTTAGTTCCGTTATAG
Seq C2 exon
GTATGTCCACCCTGCAGTCATCACTTTCTGGACCTGTGCCATTGGCCCTCTATCCCCAGACATCCATCAAGCGAACCTGTGAGCCAGGACATCTCTCCTGTGACGAGCTGTGTGTGCCCCCGGAGCAGCTGTGTGATTTCCAGCAGCACTGTGCCGAAGGCGAGGATGAAGAGAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(16.1=86.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=59.0)
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:
TCCTTCTTGCTGGGGAGACTG
R:
AGGAGAGATGTCCTGGCTCAC
Band lengths:
183-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]