BtaINT0014400 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20190796-20191184:-
Coord C1 exon
chr3:20191073-20191184
Coord A exon
chr3:20190982-20191072
Coord C2 exon
chr3:20190796-20190981
Length
91 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTACTCAACTCTCTCCGCAGAGA
3' ss Score
10.41
Exon sequences
Seq C1 exon
ATGATCTTCCAGGAGGAAAACCCAGGTGTTTTCTATCAGTATGTCATCTCTTCACCTCCCCCAAACCTTGAGAACCCCACTCCAGAGCCCCGTGTTCCTCAACTCCAGCCTG
Seq A exon
GTAAGACTTTGACTCCCAGACTTAGCAGGAGGTGGGGTGAAGCTGAGCGTGACGAGGCCCATCTGATTTGTCTACTCAACTCTCTCCGCAG
Seq C2 exon
AGATTTTGAGGGTAGAGCCCCCTCCTGTTTCAGCGCCTCGCCCTGCCCGCACCCCAGGCACCCTCCAGCGGCAGGTGAGGATCCCCCAGATGCCCGCCCCACCCCCTCCCAGAACACCCCTGGGGTCTCCAGCCGGATACTGGAAACGAGTTGGACACTCGGAGTGCTCGGCATCCTGTGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.605 A=NA C2=0.730
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=PD(13.8=42.1)
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:
GTGTTCCTCAACTCCAGCCTG
R:
CTCGTTTCCAGTATCCGGCTG
Band lengths:
171-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]