BtaINT0088730 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106327408-106327786:-
Coord C1 exon
chr11:106327649-106327786
Coord A exon
chr11:106327527-106327648
Coord C2 exon
chr11:106327408-106327526
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGCTGGCTGCTCGGCGGCAGGCA
3' ss Score
1.94
Exon sequences
Seq C1 exon
GGCACTACATGGTCGTGGACATGAGCCCGCAGGCCCTGCCCCGTGGCCACGCGGCCTTGCTGACCTCGGAGGAGCAGCGGCCCCTGGTGCAGCCCACCTGCCTGACCTTCTGGTACCACCTGAGCCTCCGCAACCCAG
Seq A exon
GTGAGGGGCTGCTGGGAGCCGGGGCCGTGGGGTCCCCTCAGGAGGCCCTTGGGAGCCCCCCCACCACAGGGGCCTGAGCAGGCACCCCTGCCACGCTGACGGGGCTGGCTGCTCGGCGGCAG
Seq C2 exon
GCACCCTGAGGGTCCACGTGGAGGAGGCCGGCAGGCAGCAAGTACTCAGCGTCAGCTCCCGCGGAGGGGCCGCCTGGCGCCTGGGCAGCGTGGACCTGCAGGCCGGGCAGGCCTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(30.1=100)
A:
NA
C2:
PF0062918=MAM=FE(25.5=100)
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:
GCACTACATGGTCGTGGACAT
R:
AGCTGACGCTGAGTACTTGCT
Band lengths:
194-316
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development