BtaINT0014385 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20195043-20195550:-
Coord C1 exon
chr3:20195317-20195550
Coord A exon
chr3:20195101-20195316
Coord C2 exon
chr3:20195043-20195100
Length
216 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTCCTGCTTTTGGTTTGCAGGCC
3' ss Score
9.78
Exon sequences
Seq C1 exon
AGGATCATTAAGAGATGGACCAATCATCACCCCTCCATTCTCACTCTGAGTTGTCCTTCTGAGAAGTCATCCCTCCCAATCTCCAGCTTTCCGGAGACTGGACCAGGCTTGGGTCCTTACAGAGTGCAACCCCCATCCGAGGCCCAGATGCCACAGTAGAGTGTTTACTTCCGGTCCCCTCCTCCCTGGGCCCAGGGCCATCAAGGGAGGAGCAATGGAGAAGTGGGCGGGCAG
Seq A exon
GTAAGTGGTAGGGGCCAGGGTGGAGGGAATGACTGATTCTCAGTCTGTAGAAGTGAGGGAAAGGACCTCTCTGGGAGGGGCCGGGGGAAGTGATGAGTAACTTCTGCTTTCTGAGAAGTTGGTATCAGGATGTGGGGAGCCAGCTGGGGGCAAGGCGTGATGTAACACCTCCTCAGGCTCCTGTCTGATACCTTCGCTCCTGCTTTTGGTTTGCAG
Seq C2 exon
GCCCCAGTTGTGTCTGATGCTGCTTCTGTCCCTCCCTCAGCTCTGCCTGGATCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
ATTAAGAGATGGACCAATCATCACCC
R:
CCTGATCCAGGCAGAGCTGAG
Band lengths:
284-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]