BtaINT0088731 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106332060-106332414:-
Coord C1 exon
chr11:106332307-106332414
Coord A exon
chr11:106332234-106332306
Coord C2 exon
chr11:106332060-106332233
Length
73 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CTGACCCCCTGCCCTCCCAGGTT
3' ss Score
9.81
Exon sequences
Seq C1 exon
CAGGGTCCCCCGGCTGGGCCTGGGTCCCCAACCACTGCAGGACCCCCCGCGAGGCCGTGTGCAACTTTGTGTGTGACTGCAGGGGCTGCCCCGACGAGGCGCAGTGCG
Seq A exon
GTGAGCCGGGGCCAGGGGGGCAGCAGCGGGGCCCACCCTCGTGGCCACCCCGCCTGACCCCCTGCCCTCCCAG
Seq C2 exon
GTTACCACGGGACCTCGCCCAGCCTGGGCACCCCCTTCACCTGTGACTTCGAGCGGGACTCCTGTGGCTGGCGGGACATCAGCACTGCGGGCTACCGCTGGCTCCGAGACCGCGCAGGGGCCTCGCCAGAGAGGCCAGGGCTGCGCGCGGACCACACTCTGGGCACTGACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:2
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=0.085
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062918=MAM=PU(28.0=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCCGTGTGCAACTTTGT
R:
GTCTCGGAGCCAGCGGTAG
Band lengths:
168-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development