RnoINT0084121 @ rn6
Intron Retention
Gene
ENSRNOG00000047768 | Lamb2
Description
laminin subunit beta 2 [Source:RGD Symbol;Acc:2988]
Coordinates
chr8:117277466-117278116:+
Coord C1 exon
chr8:117277466-117277838
Coord A exon
chr8:117277839-117277931
Coord C2 exon
chr8:117277932-117278116
Length
93 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGG
5' ss Score
8.53
3' ss Seq
TGTGTCCCCTGCTGATACAGTCA
3' ss Score
6.15
Exon sequences
Seq C1 exon
CCTGTGACTGTGATCCCAGAGGAATAGACAAACCCCAATGTCATCGTTCTACTGGTCACTGTAGCTGCCGCCCAGGCGTGTCTGGCGTGCGCTGCGACCAGTGTGCTCGTGGCTTCTCGGGTGTTTTTCCTGCTTGTCACCCCTGCCATGCATGCTTTGGAGACTGGGATCGTGTGGTACAGGACCTTGCTGCTCGTACGCGGCGCCTGGAGCAGTGGGCTCAGGAATTGCAGCAAACGGGTGTGCTGGGTGCCTTTGAGAGCAGCTTTTTAAACCTGCAGGGGAAGCTGGGAATGGTGCAGGCCATCGTGGCTGCCCGCAACACCTCAGCTGCGTCTACTGCAAAGCTTGTAGAGGCCACAGAGGGACTGCG
Seq A exon
GTACGGATGGGGCTAAATAAATAGGGTAGGGTGGAGCAAAGGCCCAAGTGATCTGGACTGAAGCCTTTCTAAATGTGTCCCCTGCTGATACAG
Seq C2 exon
TCATGAAATTGGGAAGACCACTGAGCGCCTGACTCAGTTAGAAGCAGAGCTCACAGATGTACAGGATGAGAACTTCAATGCCAACCATGCACTCAGTGGTCTGGAGAGAGACGGGCTCGCACTTAATCTCACACTGAGGCAGCTTGACCAGCATCTGGATATCCTCAAACACTCAAATTTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047768:ENSRNOT00000072098:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=40.8),PF041117=APG6=PU(51.6=64.8)
A:
NA
C2:
PF041117=APG6=FE(39.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCTGCGTCTACTGCAAAG
R:
GATTAAGTGCGAGCCCGTCTC
Band lengths:
175-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]