RnoINT0084072 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50550634-50551277:+
Coord C1 exon
chr6:50550634-50550822
Coord A exon
chr6:50550823-50551097
Coord C2 exon
chr6:50551098-50551277
Length
275 bp
Sequences
Splice sites
5' ss Seq
AACGTACGT
5' ss Score
9.51
3' ss Seq
CCTGGACTTGTTCTTCTTAGCAT
3' ss Score
4.98
Exon sequences
Seq C1 exon
AGTGTAACTGCAACGAACATTCCAGCTCGTGTCACTTTGACATGGCGGTCTTCCTGGCTACCGGCAATGTCAGCGGGGGAGTGTGTGATAACTGTCAGCACAACACCATGGGGCGCAACTGCGAGCAGTGCAAACCCTTCTACTTCCAGCACCCTGAGAGGGACATCCGGGACCCCAATCTCTGCGAAC
Seq A exon
GTACGTTGGGAAGTGGCGTTCATGGGGCTTGTTTTCGTCAGTTCTCACATGGAATAGTTTGTTGTTAACATCCTTCTCTCGGAGCGCAGACTCTGAGCATTGTAGCCAGCGTCGTTAGCTAGTTGCTGTTCGGGATGCTGGGAGGGTCATTTTCTTGCTGGTCGGGCCTTCAGTCCTCATGCGCTGGGTTTGGAAGGTAGAAGAGAACACATCGTGTTTATGCAAACAACGTGGCCTGATATCCGATGCCTCTAACCTGGACTTGTTCTTCTTAG
Seq C2 exon
CATGTACCTGTGATCCAGCTGGTTCTGAGAATGGAGGGATCTGTGACGGTTACACTGATTTTTCTGTGGGTCTCATTGCTGGTCAGTGTCGGTGCAAATTGCACGTGGAGGGAGAGCGCTGCGACGTCTGTAAAGAAGGCTTCTATGACCTGAGTGCTGAGGACCCGTTCGGTTGTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:10
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=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
ACGAACATTCCAGCTCGTGTC
R:
TCTCCCTCCACGTGCAATTTG
Band lengths:
292-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]