BtaINT0084390 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022635 | LAMC1
Description
Bos taurus laminin, beta 2 (laminin S) (LAMB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046247]
Coordinates
chr22:51467896-51468395:+
Coord C1 exon
chr22:51467896-51468080
Coord A exon
chr22:51468081-51468153
Coord C2 exon
chr22:51468154-51468395
Length
73 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCCGCCTCTGCCCAACTCAGGTG
3' ss Score
7.4
Exon sequences
Seq C1 exon
GCGCGAAATCGGGGAGGCCACGGAGCACCTGACCCGGCTGGAGGCTGAGCTTACAGACGTGCAGGATGACAATTTCAACGCCAACCACGCACTGAGTAGTCTAGAGCGAGACGGGCTTGCACTTAATCTCACGCTGCGGCAGCTTGACCAGCATCTGGACCTGCTCAAGCATTCAAACTTCCTGG
Seq A exon
GTGAGTTGGTGACCCCTGAGGCAGTTGGATCAGGGTGGATCTTCAGCTGACTGCCCGCCTCTGCCCAACTCAG
Seq C2 exon
GTGCCTATGACACCATCCGCCAGGCCCACAGCCTGTCTGCAGAGGCAGAACGCCGTGCCAACATGTCGGCCCTGATAGTGCCCAGCCCTGTGAGCAACTCAGCAGACACCCGGCACCGGACAGAGTCCCTGATGAGTGCCCGGAGGGAGGATTTCAACCGCAGGCACATAGCCAACCAGCGGGCCCTGGGCGAGCTCTCTGCCCGTACCCACGCCCTGAGTCTGACAGGCATCAACGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022635:ENSBTAT00000057452:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.063 A=NA C2=0.469
Domain overlap (PFAM):
C1:
PF041117=APG6=FE(39.7=100)
A:
NA
C2:
PF041117=APG6=PD(7.7=14.8)
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:
CCAACCACGCACTGAGTAGTC
R:
CTATCAGGGCCGACATGTTGG
Band lengths:
183-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]