RnoINT0084094 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50592873-50593413:+
Coord C1 exon
chr6:50592873-50593080
Coord A exon
chr6:50593081-50593271
Coord C2 exon
chr6:50593272-50593413
Length
191 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
TTGTTTGTTCTTCTGCACAGCAA
3' ss Score
7.91
Exon sequences
Seq C1 exon
AGGACAGCGCTGATCTGGACAGTATTGAAGCCGTTGCGAACGAAGTACTGAAGATGGAAATGCCTAGCACCCCACAGCAGTTGCAAAACCTAACAGAAGACATCCGGGAACGAGTTGAAACCCTTTCCCAAGTAGAAGTTATTTTGCAGCAGAGTGCTGCTGACATTGCCAGAGCTGAGCTGTTGCTGGAAGAAGCTAAGAGAGCAAG
Seq A exon
GTATCTGAATATACGCTCAGGCGCGTGTGTCAATAACCCGGGGTTGACAGGGCGGGATGTAGCCAGCATACTGTAAGAGACTTCTTTAACTAACAAAGGGCCTTTCAGGTGGACATGCTTTCAAAGAACATGCTGTTTTTCCAAGGGAAAAATGGTTTCATGTTAAAAGCATTGTTTGTTCTTCTGCACAG
Seq C2 exon
CAAAAGTGCAACAGATGTTAAGGTCACTGCAGACATGGTAAAGGAGGCGTTGGAAGAAGCAGAAAAGGCCCAGGTTGCAGCAGAGAAGGCGATTAAACAAGCTGATGAGGATATCCAGGGGACCCAGAACCTGCTAACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.562
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:
ACAGTATTGAAGCCGTTGCGA
R:
TTCTGCTTCTTCCAACGCCTC
Band lengths:
254-445
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]