BtaINT0088737 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021550 | MAMDC4
Description
Bos taurus MAM domain containing 4 (MAMDC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001143873]
Coordinates
chr11:106325616-106326378:-
Coord C1 exon
chr11:106326270-106326378
Coord A exon
chr11:106325792-106326269
Coord C2 exon
chr11:106325616-106325791
Length
478 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
ACGTGCCCTGCGGCCCGCAGGAG
3' ss Score
8.14
Exon sequences
Seq C1 exon
ATTGTGTTTGAAGCCACGCTGGGCGGCCAGCCGGCCCTGGGGCCCATTGCCCTGGATGACGTTGAGTATCTGGCTGGGCAGCGGTGCCAGCTGTCCACACCCAGCCAGG
Seq A exon
GTAAGCCCTGCCTAGCGGGCCGGTTCTGCTCCAGGGCAGGGCCTCTGTCAGCCCCTGGGTGGGTGGGTCATGCCCTTGCCTGAGGGACCAGGAGAGCCACAGGCCGGCTGCCCTTGCTGCGGGGCCCCAGCCCGGGGCCGGGCCATCCCGGGTTCCTGTGCCCCCAGGAGCGGGGTGCCCCCGGCCTCTGCCCACTGTGCTCTAGCTCCCGGTAAGGCCAGAGACCACAGCCGCCCTCCTGCTGGAGCCCTCGCTGGGGGCTGTGACTTCACGATAAAGGGGGCATCCAGCCTGGGGCTATAAGCCCCGGGTTTGCAGCCCTGTGCCTGCCAGGGCCCAGCCTCAGCCCGTGACTGGTGACTTCAGAGGGGACCTGGAAACGCCAGGCTGTGGGGCAGCCATGCCGGGCACCCTCCTCGAGCCTGGGTGGGGCTGAGACAGGACTGGGATCCTGGGTCACGTGCCCTGCGGCCCGCAG
Seq C2 exon
GAGATGGGGCGGCGGCCGCGGTGGTGCCGGCTGCGGTCGGCGGCACCCTCCTCCTGCTCGTGCTGCTGATGCTGCTCGGGGTTGCAGGCCGGCGCTGGCTGCAGAAGGGGGGCTGCCCCTCTTGGGGCAAGGCGGACACCGTGACCCCCGGCTTCGACAACATTCTCTTCAGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021550:ENSBTAT00000032582:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.1=81.1)
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:
ATTGTGTTTGAAGCCACGCTG
R:
AAGAGAATGTTGTCGAAGCCGG
Band lengths:
278-756
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development