DreINT0088156 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20266299-20267140:-
Coord C1 exon
chr23:20266768-20267140
Coord A exon
chr23:20266484-20266767
Coord C2 exon
chr23:20266299-20266483
Length
284 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TGTAATATTTCATTCACCAGAGC
3' ss Score
5.95
Exon sequences
Seq C1 exon
CATGTGACTGTGACCCCCGTGGCATCGAGTCATCCCAATGCAACCGTATGACGGGTCACTGCGTGTGCCAGCAGGGTGTTTCTGGTGTCCGCTGTGATCAGTGTGCCCGTGGCTTCTCCGGGACCTTCCCTGACTGTAAGCCTTGCCACCAGTGTTTTGGGGACTGGGACCGTATCGTTCAGGATTTGGCCACCAGAACTAAAGCCCTCACAGATCGAGCCAAGGAGCTTCAGACCACCGGCCTGACTCGAGCATTCGAGAGACGCTTTAAGGAGCTGGAAGACATGCTGGCACAGGCACGGGACATTGTTAATGCCCGTAATGCCACTGCTGAGGCTGTGACCACCCTGATGGGCATGATTGAGGTTCTCAG
Seq A exon
GTACTGATATGCTTCTGGTTCAGACTGTTGAAGGTCTGGAGGGAATTACTTAAGTCATTTCACTTCATTACCTTGTAATTTGCTTCACGTCAAAATGCTATGGTTGTGAGAAGCCCTCCACAGGTAGAACTGAATGAAAAATGAAATTAAATGTTTACAAATATTATAAGCATGTATTTTAGTTCGCCTTGCTTCACAACAAATCTTTCAATTTAGCATTATTTCAAAGATTTGCCAGGTAATCATCTCACTTTGTTTATGTGCTGTAATATTTCATTCACCAG
Seq C2 exon
AGCTCAGATTGGCGAGACCACAGACACACTGAACCAGCAGGAGGGAGACCTGACCGCCGTGCAGGACAGTAACTATGAAGCCAGTAATGCTTTAAGCACACTGGAGAGAGAAGCAAAAGAGCTCAACCTGAACGCAGATCAGCTTAACCGTCAGCTTGACATCCTCAAGAACTCCAACTTCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.540
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=40.8)
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:
GCCACCAGAACTAAAGCCCTC
R:
TGCTTCTCTCTCCAGTGTGCT
Band lengths:
300-584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]