BtaINT0088739 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106331855-106332233:-
Coord C1 exon
chr11:106332060-106332233
Coord A exon
chr11:106331981-106332059
Coord C2 exon
chr11:106331855-106331980
Length
79 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
CTGACCTCTCGGCTGGCCAGGCT
3' ss Score
4.58
Exon sequences
Seq C1 exon
GTTACCACGGGACCTCGCCCAGCCTGGGCACCCCCTTCACCTGTGACTTCGAGCGGGACTCCTGTGGCTGGCGGGACATCAGCACTGCGGGCTACCGCTGGCTCCGAGACCGCGCAGGGGCCTCGCCAGAGAGGCCAGGGCTGCGCGCGGACCACACTCTGGGCACTGACCTTG
Seq A exon
GTGAGGCCTGGGTGGGGCTCCATGCTATCCCCAGCCCTCTGTGCCTCCCGCCCCATCTCCTGACCTCTCGGCTGGCCAG
Seq C2 exon
GCTGGTATGTGGCAGTCGGCACACACCGAGGGAGGGAGACGGCCACCGCGGCCCTGCGCTCCCCTGTCCTGCACGAAGCCGCCCCCACCTGCGAGCTGAGGCTCTGGTACCACGTGGCCTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.0=74.6)
A:
NA
C2:
PF0062918=MAM=FE(26.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCCCTTCACCTGTGACTTC
R:
GTGTGCCGACTGCCACATAC
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development