BtaINT0088733 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106326951-106327327:-
Coord C1 exon
chr11:106327237-106327327
Coord A exon
chr11:106327098-106327236
Coord C2 exon
chr11:106326951-106327097
Length
139 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CTCACGGCTGGCCCCTGCAGCTT
3' ss Score
6
Exon sequences
Seq C1 exon
GTGGTGTTCGAGGCAGTGGCCGCCGGCGTGGAGCACTCCTACGTGGCACTGGACGACCTGCTCCTCCAGGATGGGCCCTGCCCCCTGCCAG
Seq A exon
GTGGGCGCCTGTGGCCTGGCTCCTGGTGGTCCTGGCTCCCTGCCACCCCCACAACGCCCGGCCTGACCTCCACACCCGCAGCAACGGTGCCCCAGGGGTGGAGGGCGCGGGGCATCACCCTCACGGCTGGCCCCTGCAG
Seq C2 exon
CTTCCTGTGACTTCGAGGCTGGTCTTTGTGGCTGGAACCATGTGCCCCGGCCCGGCCTGGGCGGGTACAGCTGGGACTGGAGCAGCGGAGCCTCGCCCTCCCGCTACCCGCAGCCCCCCGTGGACCACACCCTGGGCACAGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:21
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=0.180
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.3=90.3)
A:
NA
C2:
PF0062918=MAM=PU(28.3=94.0)
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:
GTGGTGTTCGAGGCAGTGG
R:
CCTCTGTGCCCAGGGTGT
Band lengths:
235-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development