BtaINT0088721 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106330096-106330609:-
Coord C1 exon
chr11:106330436-106330609
Coord A exon
chr11:106330181-106330435
Coord C2 exon
chr11:106330096-106330180
Length
255 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CCGACCCCATCCGTCCCCAGATC
3' ss Score
10.22
Exon sequences
Seq C1 exon
CTCGTCTTCTATCACTACCTGCACGGGTCTGAGGCCGGCTGCCTCCAGGTGTTCCTGCAGACGGCGAGCCCTGCGGCGCCCCAGACCCCCGTCCTGCTGCGCAGGCGCCATGGGGAGCTGGGGGCCGCCTGGGTCCGAGACCGAGTTGACATCCAGAGCGAGCACCCCTTTCGG
Seq A exon
GTGAGGCTGGTGAGGGCAGCATCGTGCGGGGAGGTCTGGGGCCCCTCAGGGAGTCCCATGTGGGCCCCTCCACCATCTCAGGAGGAGGGCAGGCCAGAGGACGGGAGGGGCTCCCTGCAGAGATGCCCCCTGAAGGGCTGGGTGTCCAGCAAGAGCCAAGGACGAGGTGTGGATTCTGGGGAGAGGACTCGGGGGCAGACCGGCCTGGGGATCACAGAGGGGTGCTGGGGCGCCCCCGACCCCATCCGTCCCCAG
Seq C2 exon
ATCCTCCTGGCTGGGCAGACAGGCCCGGGGGGCGTCGTGGGCCTGGATGACCTCATCCTGTCCAACCACTGCAAGCCAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(36.8=100)
A:
NA
C2:
PF0062918=MAM=PD(16.1=86.2)
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:
TCTATCACTACCTGCACGGGT
R:
CTGGGATTGGCTTGCAGTGG
Band lengths:
252-507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development