BtaINT0088738 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106325456-106325791:-
Coord C1 exon
chr11:106325616-106325791
Coord A exon
chr11:106325498-106325615
Coord C2 exon
chr11:106325456-106325497
Length
118 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGA
5' ss Score
6.86
3' ss Seq
GCTCCTCCCCTGCCCCCTAGGAC
3' ss Score
10.56
Exon sequences
Seq C1 exon
GAGATGGGGCGGCGGCCGCGGTGGTGCCGGCTGCGGTCGGCGGCACCCTCCTCCTGCTCGTGCTGCTGATGCTGCTCGGGGTTGCAGGCCGGCGCTGGCTGCAGAAGGGGGGCTGCCCCTCTTGGGGCAAGGCGGACACCGTGACCCCCGGCTTCGACAACATTCTCTTCAGTGCG
Seq A exon
GTAGGAGCCCTGGGTGGGGGTGGCGGGTGGGAGCCGGGGGTCGCTGTGTGCTGCCCCACACTCAGCCTGATGGTGCACAGGGCCCCAGCGGCCACTAAGCTCCTCCCCTGCCCCCTAG
Seq C2 exon
GACCGCGTCACCCTGCCAGCATCAGTCCCCCACGACCAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.231
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCTCCTCCTGCTCGTG
R:
TACTGGTCGTGGGGGACTGAT
Band lengths:
174-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development