DreINT0088124 @ danRer10
Intron Retention
Gene
ENSDARG00000045524 | lamb1b
Description
laminin, beta 1b [Source:ZFIN;Acc:ZDB-GENE-041210-197]
Coordinates
chr4:25753441-25753939:+
Coord C1 exon
chr4:25753441-25753625
Coord A exon
chr4:25753626-25753706
Coord C2 exon
chr4:25753707-25753939
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
GTGCTGATCTGGCTTTGTAGGTG
3' ss Score
8.58
Exon sequences
Seq C1 exon
TGAGACAGCATCACTTCTGAGAAAGTCTATGGACCGATCTGAAACAGACTTGGACATGGTATCTACTGATCATCACCGGGCAATTAAGGACCTAAAAAGTCTGACCAAGGAGGCCCAAAACCTACAAGAAATCACCTCTGATAAACAGCAGCAGGTTTTGAACATAAAGCATTCAGACCCCAGAG
Seq A exon
GTAAACACTGCACAATCATATGCAAGATTCAATTTAATAAAATGCTTTGCAGCTGAAGCATGTGCTGATCTGGCTTTGTAG
Seq C2 exon
GTGCAGTGGACAGCATCCGTGACTATTATAGGGAATCAGCTGAAGCAGATTTCCGTGTCAGTCAAGCCATCTCTGAACCAGTCAGACAGTCTGCCTTGCTACGAAAAGATACAGAGGCCAAACTAGAAAGAACTGAGAATGAATTTAACCTGAAACATCAGCTGTACACACAGAGGCTGAGCAAAATTGAAACTGAACTGAACTCGACAGACCTTTCACGACTAAGCCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045524:ENSDART00000141133:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.800 A=NA C2=0.280
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACTGATCATCACCGGGCA
R:
ACACGGAAATCTGCTTCAGCT
Band lengths:
182-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]