RnoINT0084107 @ rn6
Intron Retention
Gene
ENSRNOG00000047768 | Lamb2
Description
laminin subunit beta 2 [Source:RGD Symbol;Acc:2988]
Coordinates
chr8:117271471-117271926:+
Coord C1 exon
chr8:117271471-117271583
Coord A exon
chr8:117271584-117271846
Coord C2 exon
chr8:117271847-117271926
Length
263 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGA
5' ss Score
5.2
3' ss Seq
CAGCAATCCTTTTTCCCTAGCCT
3' ss Score
3.85
Exon sequences
Seq C1 exon
GTTGTCAGTGTAACTCAAGGGGCACAGTGCCTGGGGGCACCCCTTGTGACTCCAGTAGTGGAACCTGTTTCTGCAAGCGTCTGGTGACTGGAGACGGCTGTGACCGCTGTCTG
Seq A exon
GTGCGACTGAGGGATCTGGGGTTCTGGGGTCCTGGACTTGTTCTCAAAGCACATGTCTCTGGGCAAAGTCCACTGGGTGGGCGCTGAGAACTTAGAGTCTGGTCCTGGAAGAGAAGTGTCTGGTCCAGGAGGCCAAGGGTATAGACCAGTGGTCTGGGGACTTCGCATTCACCAGTCAGTGGTAGATGCTGGGAGTGTGGTTGGACTCCCTGGTGGGCGGGGAAGAGGTCTCTTCCTGGCTTCCAGCAATCCTTTTTCCCTAG
Seq C2 exon
CCTGGCCACTGGGGCCTGAGCCATGACCTGCTAGGCTGCCGCCCCTGTGACTGTGATGTGGGCGGTGCCTTGGATCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047768:ENSRNOT00000072098:12
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=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(24.4=40.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGTAACTCAAGGGGCACA
R:
TGAGGATCCAAGGCACCGC
Band lengths:
188-451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]