BtaINT0084280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49263419-49264044:-
Coord C1 exon
chr4:49263885-49264044
Coord A exon
chr4:49263723-49263884
Coord C2 exon
chr4:49263419-49263722
Length
162 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAT
5' ss Score
7.24
3' ss Seq
TTTATTTTTATTTCCCACAGATT
3' ss Score
11.25
Exon sequences
Seq C1 exon
ACTCTGGACAATGAACTTGATGAAAAGTACAAGAAAGTAGAAAATTTAATTGCCAAGAAAACCGAAGAGTCAGCAGATGCCAGAAGGAAAGCAGAAATGCTACAAAATGAAGCAAAAACACTTTTGGCTCAAGCAAACAGCAAACTGCAACTCCTGAAAG
Seq A exon
GTAGATTTTTTTTTTTAACTTATTATTAGAATTTATTTAAAAGGTAAAGTACCATTCACTCTGTCTCAAGCACTTAGAGCCTTATAATAAAAGAGGATCAGTCTTTGATTTTGAGATCATCATAGTATAACTGCTCAGACCTTTTATTTTTATTTCCCACAG
Seq C2 exon
ATTTAGAAAGAAAATATGAGGACAATCAAAAATATTTAGAAGATAAAGCTCAAGAATTAGTAAGACTGGAAGGAGAAGTTCGTTCACTCCTAAAGGATATAAGCCAGAAAGTTGCTGTTTATAGCACCTGCTTGTAACAAAGGAGGGGGAGCTGTAAGTAAAAGATGGCTGAGGTGACCAAAGCAAAATCATTACCTTTTAAAAACTGACTTAATGATCTTCAAAATAAAACTCAACCTATTTAATGTTTTTAATCACCACATTTTGTATGGAGTTAAATAAAGTACAAAGCTTTTATATAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.130 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGATGCCAGAAGGAAAGC
R:
AGCTCCCCCTCCTTTGTTACA
Band lengths:
242-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]