BtaINT0088745 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106330436-106330781:-
Coord C1 exon
chr11:106330693-106330781
Coord A exon
chr11:106330610-106330692
Coord C2 exon
chr11:106330436-106330609
Length
83 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCGTGCTCGGCCCCTGCTAGCTC
3' ss Score
3.63
Exon sequences
Seq C1 exon
GCTCCTTCCTCGCATCCGTGGCCGAGCCCAGCACCCCAGCGGTCCTCTCCAGCCCCGAGTTCCAGGCCTCGGCCCCCCACAACTGCTCG
Seq A exon
GTGAGTGGGTGGGAGTCACAGGGCGCGGCCCTGGCTGCCCAGGCCCTGTGGCGTCTCCGCTAACCGTGCTCGGCCCCTGCTAG
Seq C2 exon
CTCGTCTTCTATCACTACCTGCACGGGTCTGAGGCCGGCTGCCTCCAGGTGTTCCTGCAGACGGCGAGCCCTGCGGCGCCCCAGACCCCCGTCCTGCTGCGCAGGCGCCATGGGGAGCTGGGGGCCGCCTGGGTCCGAGACCGAGTTGACATCCAGAGCGAGCACCCCTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(18.7=100)
A:
NA
C2:
PF0062918=MAM=FE(36.8=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:
TTCCTCGCATCCGTGGCC
R:
CAGCAGGACGGGGGTCTG
Band lengths:
183-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development