RnoINT0084071 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50528823-50529157:+
Coord C1 exon
chr6:50528823-50528900
Coord A exon
chr6:50528901-50529035
Coord C2 exon
chr6:50529036-50529157
Length
135 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TCCCCCCTCTACCTCTCCAGAAA
3' ss Score
10.19
Exon sequences
Seq C1 exon
CTCCCTAGGCGAAACTTTCTAATTCCCTTCTTTGGGCCGGTGGGCTGCCAGGAGCCACTAGAACGCTCGCCCAGCCGG
Seq A exon
GTGAGGAGAACAAAGTACTTAAGCGACTTGACCCCCTTCCTGGGCCCAGCCCCCGCTTCTGTGGGAGCGGCAGGAAATGGAAAGGCCCCTCTCCTCTCTCCCAACATTTGCCTTTTCCCCCCTCTACCTCTCCAG
Seq C2 exon
AAAGGAAGACACGAAGAAAAGACGGGCAGCTTGCCTGCCGCGTCCTCCTTCCCGTGCCGCGTCCCCTCGCCTGCAAGGACTGGACATGGGGGTGCTCCAGGTGTTCGCCTTTGGTGTCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTAGGCGAAACTTTCTAATTCCCT
R:
TAGGACACCAAAGGCGAACAC
Band lengths:
196-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]