DreINT0088171 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20286970-20287365:-
Coord C1 exon
chr23:20287245-20287365
Coord A exon
chr23:20287159-20287244
Coord C2 exon
chr23:20286970-20287158
Length
86 bp
Sequences
Splice sites
5' ss Seq
AGAGTAATT
5' ss Score
1.61
3' ss Seq
TATATTTCTGTTTTTCCCAGAAT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GTTCACGGGAGGTGTGTGTGCAAACACAACACTAAAGGACTGAACTGTGAACAGTGTGACGACTTCTACAATGATCTGCCCTGGAGACCAGCAGAAGGCCGGAACACTAATGCCTGCAAGA
Seq A exon
GTAATTATAGATTCTAATATAGATCACACCATACATAGTGGCATAAATCTCTGATATCATAGCTAATATATTTCTGTTTTTCCCAG
Seq C2 exon
AATGCAACTGTAATGGTCACTCCAACCAGTGTCATTTTGACATGGCGGTGTATTTGGCAACGGGGAACATCAGTGGAGGTGTGTGTGACAACTGCCTTCACAACACCATGGGCAGCAACTGTGAGAGCTGTAAACCTTTCTACTACCAGGATCCAACTAGAGATATTAGAGACCCTGGAGTCTGTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:9
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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:
AATGATCTGCCCTGGAGACCA
R:
CTCTCACAGTTGCTGCCCATG
Band lengths:
179-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]