BtaINT0084277 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49268132-49268781:-
Coord C1 exon
chr4:49268574-49268781
Coord A exon
chr4:49268274-49268573
Coord C2 exon
chr4:49268132-49268273
Length
300 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
ACCCTGTTCTTTTTACTCAGCAA
3' ss Score
6.67
Exon sequences
Seq C1 exon
AAGATAGTGCTGATCTAGACAGCATTGAAGCAGTTGCTAATGAAGTCTTGAAAATGGAAATGCCTAGCACTCCACAGCAGTTACAGAACTTGACAGAAGATATTCGTGAACGAGTTGAAAGCCTTTCTCAAGTAGAGGTTATTCTACAGCAAAGTGCGGCTGACATTGCCAGAGCTGAGATATTGTTAGAAGAAGCTCAAAAAGCCAG
Seq A exon
GTATCTGAACACAGTTTTATATGCCATTTAGCGGAGCTCATTTTGTGTATCTCTTCCTCCTCCTCCTAAGTCACTTCAGTCGTGTCCGACTCTGCGACCCCATAGACGGCAGCCCACCAGGCTCCACTGTCCCTGGGATTTGTGTATCTAGCATGGAGTAGTCTTTTCTTTGATCAGTGACATTTCTCACCTAGTGACCTGTGGGAGTCTCTCTGCATCACTTCAGGAAAGCTGGTCTTTAAAAGAAGACCAAGTACTTTTTTCTTGTTCACACGTTATCACCCTGTTCTTTTTACTCAG
Seq C2 exon
CAAAAGTGCAACAGATGTTAAAGTCACTGCAGATATGGTAAGGGAAGCTCTGGAAGAAGCAGAAAAGGCCCAGATTGCAGCAGAGAAGGCAATTAAACAAGCAGATGAAGACATCCAGGGAACCCAAAACCTGCTCACTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.396
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATCTAGACAGCATTGAAGCA
R:
CGAAGTGAGCAGGTTTTGGGT
Band lengths:
342-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]