BtaINT0088743 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106330873-106331288:-
Coord C1 exon
chr11:106331163-106331288
Coord A exon
chr11:106331011-106331162
Coord C2 exon
chr11:106330873-106331010
Length
152 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
GGAACCCCCTTGTCCCCCAGGAC
3' ss Score
7.48
Exon sequences
Seq C1 exon
CCCCCCAGGCACACTGCCCCCGGGGGCACCACCGTTGCCAGAACGAGGCCTGCGTGGAGCCCGCCCAGCTGTGCGACGGGGAGGACAACTGTGGGGACCATTCGGATGAGGATGCGGCCCCCTGCA
Seq A exon
GTGAGTGGGACAGGGGGCTGACCCTTGGCACCGTCCTTCGGGGGCTGAGACAGCTGATGTCCACCAGAGCTTGGGCCGTGAGCACAGGCCTGGGCGGCCCAGGGGCCAGGCAGGAGGCCCCACTCGACAGCCGGAACCCCCTTGTCCCCCAG
Seq C2 exon
GACACTACATAGCCACCGATTTTGAGATGGGCCTCGGTCTGTGGAACCACTCAGAGGGCTGGACCCGAAATCACAGTGCCGGCGGCCCCAGGTACCCCGCCTGGCCACGTGGTGACCACACCTGGAACAGCGCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=90.7)
A:
NA
C2:
PF0062918=MAM=PU(26.5=87.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCACCGTTGCCAGAA
R:
CTGTGCGCTGTTCCAGGTG
Band lengths:
238-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development