DreINT0088160 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20263131-20263829:-
Coord C1 exon
chr23:20263685-20263829
Coord A exon
chr23:20263339-20263684
Coord C2 exon
chr23:20263131-20263338
Length
346 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
GTTTTGTTGACCATTCACAGAGG
3' ss Score
4.43
Exon sequences
Seq C1 exon
GTGGCGGATGCTAAGACCAAGGCACAGGAAGCGAAAGACAGAGCTCAGGCAGCTCTGGAAAAAGCTAGCGATACCAAGAACAAAGTGGATCATTCTAACAATGATCTAAGGGACCTTATCAAACAAATACGCCAATTCCTCATGC
Seq A exon
GTGAGTTAATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATATAATGAACCACCTCTTTTGTATTATCATATGCAAATAATAACATTAGTTGGCTAGTTTTTTTGTTACATGTTTTATTTTTTTTACTAATTTTGCAAAGAGACTTTTTATATTATTGTTATTCTTTTTTTAATAACTTTTGTAGAAAACAAAAAGCAAAACACATTGCAGATTACATTTAATAAGACCCTTTAATATACACATTTGAATGCCCGTCTGTATGTTTTGTTGACCATTCACAG
Seq C2 exon
AGGAGGGTGCAGATCCGGACAGCATTGAGGCGGTGGCCAATCGTGTGCTGGAGCTCTCAATCCCTGCCTCTCCCAAGCAGATCCGACACCTAGCAGACGAGATTAAAGACCGTGTCAAGAGTCTGTCTAATGTGGATGCCATTCTGGAGCAAACACAAAATGACGTCCGCAAAGCAGAGCAACTGTTGCTGGATGCCAAGAAAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.612 A=NA C2=0.271
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:
CGGATGCTAAGACCAAGGCAC
R:
CTAGCTTTCTTGGCATCCAGC
Band lengths:
349-695
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]