BtaINT0014386 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20190487-20190981:-
Coord C1 exon
chr3:20190796-20190981
Coord A exon
chr3:20190617-20190795
Coord C2 exon
chr3:20190487-20190616
Length
179 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTCCCTTTATCCCCCTTCAGGTG
3' ss Score
11.6
Exon sequences
Seq C1 exon
AGATTTTGAGGGTAGAGCCCCCTCCTGTTTCAGCGCCTCGCCCTGCCCGCACCCCAGGCACCCTCCAGCGGCAGGTGAGGATCCCCCAGATGCCCGCCCCACCCCCTCCCAGAACACCCCTGGGGTCTCCAGCCGGATACTGGAAACGAGTTGGACACTCGGAGTGCTCGGCATCCTGTGGGAAAG
Seq A exon
GTGAGACTTCACACACCAGCCCCCTTGGCCCATATTCCTGGCTTGGCACTCCTGATCCCCTGCCCTGGGCATGCATCACACCTTGACTCTGTGCCAACTCAGACTTCAGTGCCTGGGACCCACTGACACTGGATGCCGAGCCATCCCACCTCCCCCGGCTTCCCTTTATCCCCCTTCAG
Seq C2 exon
GTGTTTGGCGCCCCATCTTCCTCTGCATTTCTCGAGAGTCAGGAGAGGAGCTGGATGAACGCAGCTGTGCCATGGGTGCCAGGCCCCCAGCCTCCCAGGAGCCCTGCCACGGCCCCCCGTGCCCACCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.730 A=NA C2=0.273
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
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAGAGCCCCCTCCTGTTTCA
R:
CAGCTGCGTTCATCCAGCTC
Band lengths:
242-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]