RnoINT0084097 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50595544-50596079:+
Coord C1 exon
chr6:50595544-50595703
Coord A exon
chr6:50595704-50595821
Coord C2 exon
chr6:50595822-50596079
Length
118 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TGCTTTTATCATCTCCACAGACT
3' ss Score
9.92
Exon sequences
Seq C1 exon
ACTCTAGATGGCGAACTTGATGAAAAATATAAGAAGGTAGAGAGTTTAATTGCCCAAAAAACTGAAGAGTCAGCAGATGCCAGGAGGAAAGCTGAGCTGCTACAAAATGAAGCAAAAACACTCCTGGCCCAAGCCAACAGCAAACTTCAGCTGTTAGAAG
Seq A exon
GTGGGTCTTTTCTTCCCAATTGGTCTTTTATAAGGGTGAAGACTTAGGTTTTCATGGTCTTACTTTAAGATCATATGCTATAAACAGCTCATTCTTACTGCTTTTATCATCTCCACAG
Seq C2 exon
ACTTAGAAAGGAAGTATGAGGACAATCAAAAGTACTTAGAAGATAAAGCTCAAGAACTGGTGCGACTGGAAGGAGAGGTGCGCTCACTCCTTAAGGACATAAGTGAGAAAGTTGCCGTTTACAGCACCTGCTTATAACAGAGGATGGGGCTGTAGGGTGGCTCAGTGACCAAAGTAAACATGCGCAAACTGCTGCCTCGACCTACAGATAACTCATCCTCATTTAATGTCTTTAACCACCTTCTTTTGTATGGAGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGGAAAGCTGAGCTGCTA
R:
TTTGGTCACTGAGCCACCCTA
Band lengths:
252-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]