RnoINT0084108 @ rn6
Intron Retention
Gene
ENSRNOG00000047768 | Lamb2
Description
laminin subunit beta 2 [Source:RGD Symbol;Acc:2988]
Coordinates
chr8:117271847-117272137:+
Coord C1 exon
chr8:117271847-117271926
Coord A exon
chr8:117271927-117272004
Coord C2 exon
chr8:117272005-117272137
Length
78 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
GTAACCACAGCATTCCTCAGGTG
3' ss Score
-0.84
Exon sequences
Seq C1 exon
CCTGGCCACTGGGGCCTGAGCCATGACCTGCTAGGCTGCCGCCCCTGTGACTGTGATGTGGGCGGTGCCTTGGATCCTCA
Seq A exon
GTGAGTACTGTTACAGGTGCTTGAGAGGTGGTTGGGAAGGCCAAGCGGCTGTCCTTAAGTAACCACAGCATTCCTCAG
Seq C2 exon
GTGTGATGAAGCCACGGGTCAGTGCCGCTGCCGCCCACACATGATTGGGCGGCGCTGTGAACAAGTACAGCCTGGCTACTTCCGGCCTTTTCTAGACCATCTAACCTGGGAGGCTGAGGGTGCCCATGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047768:ENSRNOT00000072098:13
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=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(24.4=40.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(73.3=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAGCCATGACCTGCTAGG
R:
GCCTCCCAGGTTAGATGGTCT
Band lengths:
180-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]