RnoINT0084096 @ rn6
Intron Retention
Gene
ENSRNOG00000005678 | Lamb1
Description
laminin subunit beta 1 [Source:RGD Symbol;Acc:1306311]
Coordinates
chr6:50594333-50595703:+
Coord C1 exon
chr6:50594333-50594509
Coord A exon
chr6:50594510-50595543
Coord C2 exon
chr6:50595544-50595703
Length
1034 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GTCTTAAACTGGATCCGCAGACT
3' ss Score
5.76
Exon sequences
Seq C1 exon
ATTGAATCTGAGACAGCAGCGTCTGAGGAAACCCTGACCAATGCCTCCCAGCGCATCAGCAAGCTTGAGAGGAATGTGGAAGAGCTTAAGCGTAAAGCTGCCCAGAACTCTGGGGAGGCAGACTATATTGAAAAAGTCGTATATAGTGTAAAACAGAGTGCAGACGAGGTTAAGAAG
Seq A exon
GTAAGTAAATCTTTGTAACTTCATGGCTAAGTTGATGAGTAGGCAACTACTTTTTTCCTTACCTTCCTTGACATTAGTTAAGATACGAATAGCCCAGTGACCTACAAAGTCTTTTGGATACATGAATAAAGAGTGGATTATGGGGTAAAACTGTAACCACATAGATACTCTGAGGTATACTCACTCGACTGGTATTCCTGTACTGTAGGAATAGCATAGCATAGTCTTTTTGGCATAGCAGTTGGCCACACCCATTTGAGAACAATGTAAGACAGAATGGGAAAAGCCTGGAGTCCCTTACAGAGAGTAGCTAGTAGAAAATCAAATCGCTACCTTTTGTTTCTCACTGGGAAGGTACTATGTTTAGCAATTTTATGTTTGACACACATTTCATTTCTAAATGTACTTCCAAAGACAGCTTTTTAAACTTGGGAGTGAAGTCAGAATTGTTAAGTCTGTCACATGAGAAGTGTGTAAGTCGACATGGCTTTCCAGTAGTGCATAAGAATAATCTCAGCACACCCTGGGTTGGAAGAGAGGCAAACCCTAGGAAAACCATCTGCCAGCGTGAGACTACTCTTCCTGACCTGTTTATCACAATCTGAAGGCACAAATCTCCTATGGCATTGGAAAAAAATGACACTATTTAAAAATTTAAAACCTCTAGAAGTGATTTTTCATAATCAGTTTGTACCTGTTGTTTCAAACCCTGTGTTCTCTATTTGGAGGGGAGTAGGTGGTGTTGACTGGGCTGGCCTCTAACTCGGATCCACCTCCCCCTTCCAGAGTGCCCGGATTAAAGTATGTGTATGCACCACAGCTGGCCACTCACCTGTGTGTGTGCTACAGTAGCAGGCTTGTAATTCTTAATTTTCCTTGCATTGTTGTTAAAATTACAACTTAATATGAAGCTATTCCATAATCTAAGATGCTTGGCTTCTCCGGGAAAAAAAAAAAATGTCTTTAATCTAAGGTTCTTGAATGTAATTACTGACATAACAGTTTCACCTTTCTGTCTTAAACTGGATCCGCAG
Seq C2 exon
ACTCTAGATGGCGAACTTGATGAAAAATATAAGAAGGTAGAGAGTTTAATTGCCCAAAAAACTGAAGAGTCAGCAGATGCCAGGAGGAAAGCTGAGCTGCTACAAAATGAAGCAAAAACACTCCTGGCCCAAGCCAACAGCAAACTTCAGCTGTTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005678:ENSRNOT00000008321:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATCTGAGACAGCAGCGTC
R:
AGCTGAAGTTTGCTGTTGGCT
Band lengths:
327-1361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]