RnoINT0088599 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2792028-2792476:-
Coord C1 exon
chr3:2792351-2792476
Coord A exon
chr3:2792166-2792350
Coord C2 exon
chr3:2792028-2792165
Length
185 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGG
5' ss Score
2.19
3' ss Seq
CCCCCACTCCCACTCCTCAGGCC
3' ss Score
8.77
Exon sequences
Seq C1 exon
TCCCTCAGGCCAGGTGTCCCCTGGGGCACCACCACTGCCAGAACAAAGCTTGTGTGGAGCCCCACCAGCTCTGTGACGGTGAAGACAACTGTGGAGACAGTTCTGATGAAGACCCGCTCATCTGCA
Seq A exon
GTGAGGCTGGGGCCATCTAGGGCCGGGCAGGGTGAGGGATTACAGAATGAGAGGGGGAGACTAGACCTTGACCTCTGAGTCCTTCACTCTGGGTGGGACAGCCAGTGTTTCTCTGGAACCAGGGCCATCTGACTGCAGAAAGCCCTGTTCAGTGGCCCTGATAGCCCCCCACTCCCACTCCTCAG
Seq C2 exon
GCCACCACATGGCCACCGACTTTGAGACAGGCCTAGGACCATGGACCCAATTAGAGGGCTGGACACGGAACTTCAGTGCTGGCAGCATGGTGAGCCCTGCCTGGCCCCACCGAGATCACAGCCGGAATAGTGCATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=90.7)
A:
NA
C2:
PF0062918=MAM=PU(26.5=87.2)
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:
TCCCTCAGGCCAGGTGTC
R:
TATTCCGGCTGTGATCTCGGT
Band lengths:
255-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]