DreINT0088155 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20266768-20267339:-
Coord C1 exon
chr23:20267243-20267339
Coord A exon
chr23:20267141-20267242
Coord C2 exon
chr23:20266768-20267140
Length
102 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTA
5' ss Score
6.36
3' ss Seq
GTTTGATTCTCTCCCTGCAGCAT
3' ss Score
9.93
Exon sequences
Seq C1 exon
TTTACAGGCCAGTGCCAGTGCCGTGTTGGGTTTGGAGGAAAGACCTGTACAGACTGTCAGGAGAACCACTGGGGTGACCCAAGAGTGCTATGCCGAG
Seq A exon
GTACTAACTCTCTCATTGGCCTGTTTTTAATTTACAATCTATCACAATTCCCCAAAATCCAACTGATTTGATTTTTTTTCTGGTTTGATTCTCTCCCTGCAG
Seq C2 exon
CATGTGACTGTGACCCCCGTGGCATCGAGTCATCCCAATGCAACCGTATGACGGGTCACTGCGTGTGCCAGCAGGGTGTTTCTGGTGTCCGCTGTGATCAGTGTGCCCGTGGCTTCTCCGGGACCTTCCCTGACTGTAAGCCTTGCCACCAGTGTTTTGGGGACTGGGACCGTATCGTTCAGGATTTGGCCACCAGAACTAAAGCCCTCACAGATCGAGCCAAGGAGCTTCAGACCACCGGCCTGACTCGAGCATTCGAGAGACGCTTTAAGGAGCTGGAAGACATGCTGGCACAGGCACGGGACATTGTTAATGCCCGTAATGCCACTGCTGAGGCTGTGACCACCCTGATGGGCATGATTGAGGTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:24
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=0.008
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=FE(66.7=100)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=40.8)
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:
CCGTGTTGGGTTTGGAGGAAA
R:
GTCCCAGTCCCCAAAACACTG
Band lengths:
247-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]