BtaINT0014389 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20188743-20189421:-
Coord C1 exon
chr3:20189245-20189421
Coord A exon
chr3:20188950-20189244
Coord C2 exon
chr3:20188743-20188949
Length
295 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CACACTCTGCTTCCCAACAGTGC
3' ss Score
9.1
Exon sequences
Seq C1 exon
TGCTCTGTGCGATGCGGGCGCGGTCAGAGGAGCCGGCAGGTCCGCTGTGTCGGCAACAACGGGGATGAAGTGAGTGAGCAGGAGTGCGCCTCAGGGCCCCCGCGGCCCCCCAGCAGAGAGGCCTGCGACATGGGGCCCTGCACCACGGCCTGGTTCCACAGCGACTGGAGCTCCAAG
Seq A exon
GTGGGCCCCCCTCTCTGCTGAGCCCCAACATCCCTAGTGCCCCCCATCACCCACGACACCCTCTCAGGTGTCTTCCCAACGCAGTTGCATAAACGTTGACTGGGCAAGCACCTGCTGTGTGCTAGACACTGCCAATGTTGGGAACTTGGAAAAAAACTTACACTAACGTCCTGAACCTGCCTGGCAAAAGTCCCCCAGGGCATTCCCTAACTCCCGGATCCAGGAGGTGTCTGTCCTTGACCCCCTCCCCTCCCCCACGTCACCCCGTCTCCCTTCACACTCTGCTTCCCAACAG
Seq C2 exon
TGCTCAGCGGAGTGTGGGACGGGAATCCAGAGACGTTCTGTGGTCTGCCTTGGGAGTGGGGAGGCCCACGGGATAAGCCAGGAGGAAGCAGGGGCAGGAGCCGGTGAGCAGACCTGTGCACCCGGAAGCCGGCCCCCTGACATGCGTGCCTGCAGTCTGGGGCCCTGTGAAGTGTCGTGGTGCTGGTACACCGGGCCCTGGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(83.6=78.0)
A:
NA
C2:
PF0009014=TSP_1=PU(10.7=8.7)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATGAAGTGAGTGAGCAGG
R:
GTACCAGCACCACGACACTTC
Band lengths:
305-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]