RnoINT0084105 @ rn6
Intron Retention
Gene
ENSRNOG00000047768 | Lamb2
Description
laminin subunit beta 2 [Source:RGD Symbol;Acc:2988]
Coordinates
chr8:117270801-117271361:+
Coord C1 exon
chr8:117270801-117270989
Coord A exon
chr8:117270990-117271181
Coord C2 exon
chr8:117271182-117271361
Length
192 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGG
5' ss Score
5
3' ss Seq
TATACTTTCCTTTTTCTCAGCTT
3' ss Score
8.45
Exon sequences
Seq C1 exon
AGTGTGAGTGCAACGGGCATAGTCATAGCTGCCACTTTGACATGGCTGTGTACCTGGCATCTGGAAACGTAAGTGGAGGTGTCTGCGATGGCTGTCAGCACAACACGGCTGGGCGCCACTGCGAGCTCTGCCGGCCCTTCTTCTACCGTGACCCAACCAAGGACATGCGGGATCCAGCTGCGTGCCGTC
Seq A exon
GTAAGGCTGGGATTGGGCACGAGGGAGGGAAAGCTGAGCCTGAGGCGGGAACTAGGAAGCTAGATTATAGATTACGGTCCTGGTCACCGGGAATTGGTGTGGTAAGGGCTTGGGGGAGAACCAGAGCAGGAGTAGGGGAAGTCTCAGGCTTGTCACTGGGATAGGGTGATTTTATACTTTCCTTTTTCTCAG
Seq C2 exon
CTTGTGACTGTGACCCAATGGGTTCTCAAGACGGTGGCCGCTGTGATTCCCATGATGACCCTGTGCTAGGTCTGGTCTCAGGCCAGTGTCGCTGCAAAGAACACGTGGTTGGCACTCGCTGCCAGCAATGCCGGGACGGCTTCTTTGGACTTAGTGCCAGCAACCCTCGAGGATGTCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047768:ENSRNOT00000072098:10
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCATAGTCATAGCTGCCAC
R:
CCTGAGACCAGACCTAGCACA
Band lengths:
257-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]