RnoINT0088583 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2789252-2789632:-
Coord C1 exon
chr3:2789498-2789632
Coord A exon
chr3:2789389-2789497
Coord C2 exon
chr3:2789252-2789388
Length
109 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CAAACTTCACTTCTCTGCAGGGA
3' ss Score
7.73
Exon sequences
Seq C1 exon
GTTTTTTCATGTTCCTGGATCCCATGGACCCACCTGCTCGAGGCCAAGGTGCCCTGTTGCTCACAAGACCCCAGGTGCCAGTTGTCCCCAAGGAATGTCTCAGCTTCTGGTACCATCTGCATGGGCCCCAGATTG
Seq A exon
GTGAGAGCCTCAGAGCTGTCAGAGCCTCTGGGTGATTCCGGTACCCACTACAGCAGCCCAAGGCACTAGGAGTTGGGGGCTGGTCCCTTCAAACTTCACTTCTCTGCAG
Seq C2 exon
GGACACTGTGCTTGGCCATGAGGAGGGAGGGGGAGGAAGACACACTACTGTGGTCCCGGTCAGGCACCCACGGCAACCGCTGGCACCAGGCTTGGGTCACTCTTCACCACCAGCTGCAGCCCAGCACCAAGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(29.0=100)
A:
NA
C2:
PF0062918=MAM=FE(29.0=100)
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:
TGTTCCTGGATCCCATGGACC
R:
CAGCTGGTGGTGAAGAGTGAC
Band lengths:
242-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]