RnoINT0084095 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50593272-50594509:+
Coord C1 exon
chr6:50593272-50593413
Coord A exon
chr6:50593414-50594332
Coord C2 exon
chr6:50594333-50594509
Length
919 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
GGTTAACATTAAACCTTTAGATT
3' ss Score
3.14
Exon sequences
Seq C1 exon
CAAAAGTGCAACAGATGTTAAGGTCACTGCAGACATGGTAAAGGAGGCGTTGGAAGAAGCAGAAAAGGCCCAGGTTGCAGCAGAGAAGGCGATTAAACAAGCTGATGAGGATATCCAGGGGACCCAGAACCTGCTAACATCG
Seq A exon
GTAAGGAGCGGAGGAAACACACAGAGTCCCTGTAACACTGCAAACTAGTCCTTTAAATAAGTTAGAACTGTTTCTCTTAGCACTTTCTAAAGTGAAAGTGGGTCAGAGATTAAGCAGTATTGCTTAAACAATTTTATTATTAATTTTAATTATTCACAATTGTTTTCCAGGTTAATGGTACACTTAAGAGGCTGAGAATCTTTGGCTTGATTTACAAATTTTGGCCTGTGTCTCTCCCAACATTAGCTTTGATAAATGTTTTGCTATTCAGGTAGTTTTGTGGAACATACCTATCCGTGAAGCTCACTTTTAAGGGAAGCTAAAGGCCAGACACTTACTCAGAGCTAGCTTTTAAGACAGTGCTATCTTTCCAAGGAGACCAACTATAGACGCTTACCAGTTGCATTTCCTCTGGGGGGAACTCAGTATTTCTAGTGTCCTGAGTCTTCACATCTTCAAGCTAATTCCTCCTCACTACCAGAGTCTAACATGGAGCTGACAGGACTGTCTAAAATGGTGACTCAAGTTGCTGGTTTACTTTTCCACAGAATGGAACTCCTCCTCACAGTTGGCTCTTTTGTGAATGTTCTTTAGCTAAACACAGCTTAGACAGCAGATGTAAGGATGATGTGTGCTGTAGTCTCAACCTCCCTAACACGCGTTAATACAGTTCCTCATGTTGTGGTGGCCCCTAACCATATTATTATTTTGTTGCTACTTCATAACTGTATTTTGCTACTGTTATGAAAATAGGTGATATGCAGCCCCCAAAGCAGTTGCAACCCCAGGTTTAGAACCACTCCTCTAAGCTGTCCTAATTCTGTCAGTGCTTCTGATCTAGTGCAGACTACTAGCATGGCAGCCTCCCCTCCCCTGAACTTGACTAACGAAGTCTGGATGGTTAACATTAAACCTTTAG
Seq C2 exon
ATTGAATCTGAGACAGCAGCGTCTGAGGAAACCCTGACCAATGCCTCCCAGCGCATCAGCAAGCTTGAGAGGAATGTGGAAGAGCTTAAGCGTAAAGCTGCCCAGAACTCTGGGGAGGCAGACTATATTGAAAAAGTCGTATATAGTGTAAAACAGAGTGCAGACGAGGTTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=0.441
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:
CAAAAGTGCAACAGATGTTAAGGTCA
R:
TTCTTAACCTCGTCTGCACTCTG
Band lengths:
318-1237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]