RnoINT0084114 @ rn6
Intron Retention
Gene
ENSRNOG00000047768 | Lamb2
Description
laminin subunit beta 2 [Source:RGD Symbol;Acc:2988]
Coordinates
chr8:117275785-117276334:+
Coord C1 exon
chr8:117275785-117275928
Coord A exon
chr8:117275929-117276102
Coord C2 exon
chr8:117276103-117276334
Length
174 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
AGTCTCTATCTTGTCCCCAGCCT
3' ss Score
6.25
Exon sequences
Seq C1 exon
CCTGCCAGTGTGACCCTCAAGGCTCACTGAGTTCCGAATGCAATCCTCATGGTGGCCAGTGCCGGTGCAAGCCTGGAGTGGTTGGACGACGCTGTGATGCCTGTGCTACTGGCTACTATGGCTTTGGGCCCGCAGGCTGTCAAG
Seq A exon
GTATTCGTTTATCTCTTGGTCTCTGCTATTCTCTTCCCCTCTGGCTTTGCTACTTTCCACAGCTCTGATTTGGATCCCACACTCTTAGGTTGGGGTCCCTTGCCCTTTTCTTCCTTTCCCCAACCTTCCCAGCCAGACTGCCTCCTGTCCACTTAGTCTCTATCTTGTCCCCAG
Seq C2 exon
CCTGCCAGTGTAGTCCTGACGGAGCACTCAGTGCCCTGTGTGAAGGGACTAGTGGACAGTGTCTCTGCCGAACCGGTGCCTTTGGTCTTCGCTGTGACCACTGTCAACGTGGCCAGTGGGGTTTCCCTAACTGCCGGCCGTGTGTCTGCAACGGGCGTGCAGATGAGTGTGACGCCCACACAGGCGCTTGCCTGGGCTGCCGTGATTACACAGGGGGCGAGCACTGTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047768:ENSRNOT00000072098:19
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=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=59.0),PF0005319=Laminin_EGF=PU(62.5=38.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGTGACCCTCAAGGCTCA
R:
GACAGTGGTCACAGCGAAGAC
Band lengths:
244-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]