BtaINT0084274 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011412 | LAMB1
Description
laminin subunit beta-1 precursor [Source:RefSeq peptide;Acc:NP_001193448]
Coordinates
chr4:49271488-49272327:-
Coord C1 exon
chr4:49272124-49272327
Coord A exon
chr4:49271633-49272123
Coord C2 exon
chr4:49271488-49271632
Length
491 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
ATTTTACTCCCCATATATAGGTC
3' ss Score
8.07
Exon sequences
Seq C1 exon
ACGTGTGGAACGCCTCCAGGGGCCTCCTGTTCCGAGACGGAATGTGGCGGCCCAAACTGCAGAACCGACGAAGGAGAAAAAAAGTGTGGTGGGCCTGGCTGTGGTGGGCTGGTCACTGTTGCACACAGCGCCTGGCAGAAAGCCATGGACTTTGACCGAGATGTCCTGAGTGCCCTGGCTGAGGTGGAGCAGCTCTCCAAGATG
Seq A exon
GTAATTCAGTGGATGGCCTATTTTTGTTGGCTTTCAGTTATGGAGGACCTGAACGGGAGAAATCAATCTCAAATGCTGACTAATAAGAAAGGGCAAAAGTTTTTGTAAGATCAGGGAGATGAGGTTTTATTCATAGGTGGACTAAGTGCTTATTTCTCATTATGATAATTTGAAATATCCATGTAAATAACCATTGGTCCAGGGTTATGAATACATCCAGCTTTTATTTCAATTGAGCTTGGAACCTGAGAAAAAGACCAAAGAACAACTGGGGAAAAAAACTGTATATGCTAGCCCTAGCTACGTAAGACCGCTGTATAGGAACTGATATACTGATGACTTTGTCTACACAATAGTATGGTTGAATGCGAGACATTTCTAAAACCCATGATTCCAAATACAGTTTTTCGTCATCATTTTCTGGATCATTTATAGTATTCTCGTCTGTTTGAGTGACATTGTTCCATGCGTATTTTACTCCCCATATATAG
Seq C2 exon
GTCTCTGAAGCAAAACTGAGGGCTGATGAGGCGAAACAGAATGCTCAAGATGTTCTGTTGAAAACCAATGCTACCAAAGAAAAAGTGGACAGGAGCAATGAGGATCTGAGAAATCTGATCAAGCAAATCAGGAACTTTTTGACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011412:ENSBTAT00000015166:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.469
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:
GGGCCTCCTGTTCCGAGAC
R:
GGGTCAAAAAGTTCCTGATTTGCT
Band lengths:
330-821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]