BtaINT0014393 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003604 | ADAMTSL4
Description
Bos taurus ADAMTS-like 4 (ADAMTSL4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101061]
Coordinates
chr3:20194399-20195100:-
Coord C1 exon
chr3:20195043-20195100
Coord A exon
chr3:20194755-20195042
Coord C2 exon
chr3:20194399-20194754
Length
288 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGAACTTTTTGTCTACCTAGGTG
3' ss Score
9.71
Exon sequences
Seq C1 exon
GCCCCAGTTGTGTCTGATGCTGCTTCTGTCCCTCCCTCAGCTCTGCCTGGATCAGGAG
Seq A exon
GTGAGCCAGGGACTAGAGGCTACGATCCTTTCATCTCTCTGTCTCCCCACTACCCACTATCTCCAGACCACATTTGCATTTTCTGCAGCCTCTGATAAGACCTGGCCCCTTTCTCTCACACTTGGCCCTCCAGCCTCTCCAACTCCCTAACTCCTTGCCAAATCACCTCTGCTACTGAATTTGACCTTGGGTCAGTAACAACTGCCCCAAACCTCAGGGTGGACTAGATATTCTGTACAGTTCCCTCGAAAATCATTCTAATTTTGTCTGAACTTTTTGTCTACCTAG
Seq C2 exon
GTGTTGTCTGGACACTCTCTTCAGACACCCCCCGAAGAGAGCCAGGGCCCTGAAGGGGTCTGGGGTCCTTGGGACCAGTGGGCCTCTTGCTCCCAGCCCTGCGGGGTTGGGGTACAGCGCCGAAGCCGGACATGTCAGCTCCCTACAACTCAACTCCACCAGGGCCTGCCCCTTCCACCCCGGCCCCCAAGACATCCAGAAGCCCTGCTTCCCCGGGGTCAAGGCACCAGACCGCAGACTTCCCGAGAAACCCTTCCCCTATACAGGCCACCACCTCGAGGAAGAGGTGGCCCCCTTCGAGGTCCTGCTTCTCAATTAGGGAGAGAGGAGGCTCCGGAGACTCAAGGAGCTAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003604:ENSBTAT00000004686:2
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=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=31.9)
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:
TCTGATGCTGCTTCTGTCCCT
R:
ATAGGGGAAGGGTTTCTCGGG
Band lengths:
308-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]