RnoINT0088594 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2786523-2787058:-
Coord C1 exon
chr3:2786892-2787058
Coord A exon
chr3:2786764-2786891
Coord C2 exon
chr3:2786523-2786763
Length
128 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGA
5' ss Score
6.86
3' ss Seq
TATCCCTTCCTTCTTTCTAGGAT
3' ss Score
12.53
Exon sequences
Seq C1 exon
GTGGAGTGGCAGCACCCGTGTCTGTGCCGGTTGCAGTCGGAGGAGCCCTCCTCCTCTTCCTGTTGCTCCTGGGCCTTGGAGGTTGGCACTGGCTGCAGAAGCAGCACCTCCCCTGCCAAAGTACAGATGCAGCAGCCTCTGGCTTTGACAATATCCTCTTCAATGCG
Seq A exon
GTAGGAACCCCAAAATGTGGGGAAAGCAGTGGGGGACCAGGACTCGGAAGCAGGGACCCCGCCCCACCCTGTCCAGATCCACACTGCCTTTCGACAGCAGTTGTCCAATATCCCTTCCTTCTTTCTAG
Seq C2 exon
GATCAAGTTACCCTCCCAGAATCAATCACCAGTAACCCATAGAGCACTCCAGACAAGGCCTGGCCTGACATGGCAACTCTCACAGCATTCAAACCTCACAGGCACTGGCCTGCCCACCTGCCTGTGGGCCTGGATGTAGGGACCGAGTCATGATTACCTCACCAGGTCTTCCTCTATCTGGTGTCTTTGCCCTCTGGTGTGATGGAGAAGGGTAGAGGAGTCTTTGTACTGTGAATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.308
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTACAGATGCAGCAGCCTCT
R:
CCATCACACCAGAGGGCAAAG
Band lengths:
253-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]