DreINT0088127 @ danRer10
Intron Retention
Gene
ENSDARG00000045524 | lamb1b
Description
laminin, beta 1b [Source:ZFIN;Acc:ZDB-GENE-041210-197]
Coordinates
chr4:25756810-25757382:+
Coord C1 exon
chr4:25756810-25756947
Coord A exon
chr4:25756948-25757177
Coord C2 exon
chr4:25757178-25757382
Length
230 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
GAATCTGATTGTCTGTGTAGACG
3' ss Score
4.75
Exon sequences
Seq C1 exon
ACGCTCGAGGACGTGCGGATGAGGCTAAACTTAGCGCTCAGGATGTGTTACTAAGAGCCAATCAGAGCAAAGCACGAGTGGAACAGACCAATGAGGATCTCAGAAACCTCATTCAGCAGATACGAGACTTCCTCACAA
Seq A exon
GTATGTATTGTCAAATGTAACACAAGCACTCACACTATGGGTCTGTGCACAATATCACAATTTCAAACTTCTAGTTTGTCAGAACTGTAATAGCTTTAGCTTTACACCAGTCTTTTTGCTAGTTACAATTACCATTGCTTGTTGACTATAGGAGCATGGTATTTCAGTTATGAAGTCATTAAGTGATGTAACGGATATATGAAAACACTTGAATCTGATTGTCTGTGTAG
Seq C2 exon
ACGAAACCGATCCAAAGCGTATAGAGGAAGTGGCTAATGAGGTGATGAAACTGAGTCTACCTGTGTCGTCCGGGGCACTAAAAAACATGACCACAGAAATACGCAAACATGTGGCCAGATTGACCAATGTGGAGGATATTCTTTCCCAGACGGCAGAAAAAACCCGCAATGCAGAGAGACTCCTGGAACAAGCAAAGGCTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045524:ENSDART00000141133:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.746
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:
CGTGCGGATGAGGCTAAACTT
R:
GTCTCTCTGCATTGCGGGTTT
Band lengths:
307-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]