DreINT0090639 @ danRer10
Intron Retention
Gene
ENSDARG00000061517 | lrp1bb
Description
low density lipoprotein receptor-related protein 1Bb [Source:ZFIN;Acc:ZDB-GENE-070912-401]
Coordinates
chr9:36730210-36730827:+
Coord C1 exon
chr9:36730210-36730334
Coord A exon
chr9:36730335-36730455
Coord C2 exon
chr9:36730456-36730827
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGAG
5' ss Score
1.33
3' ss Seq
TTGTATGCTTTCGCATGCAGGCA
3' ss Score
8.96
Exon sequences
Seq C1 exon
AGCTCATGCCAATGGATCAATCCGCCGTGGATTCAAGAGCGATGCCACCGATGCTGTCACCATGAGAAGCGGCCTTGGCGTCAACCTGAAGGATGTGAAAGTGTTTAACAAAGGCCGGGAGAAAG
Seq A exon
GTTGAGGTTTCAACTTAATGAGTTAATTTTATTATGTCTCATATGTTACATGACTAACCAGATTTAATCTGAAAATCTCAGTGTGCATACAGTGATGCCTTTTGTATGCTTTCGCATGCAG
Seq C2 exon
GCACCAACCCATGTGCGAGAAGTAATGGAGGTTGTCAGCAGTTGTGTTTTCACTTGGGCAGCGGACGGAGGACCTGTTCTTGCGCTCATGGCTATTTGGCCGAAGATGGCTTTGCTTGCCAAAGATATGGAGGCTATCTTCTGTACTCTGAAAGGACTATATTGAAAAGCATCCATCTATCTGACGAGAGCGATCTCAACTCCCCATTACAACCTTTCGAGAATCCGGACTACTTTAAGAATGTCATTGCTCTAGCGTTTGATTATCGGCAAGAGAGTTCACCGCACAATCGCATATTCTTCAGCGACATCCATTTTGGGAATATTCAGATGATCAATGATGATTGGTCTGGAAGACAAGTCATAGTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061517:ENSDART00000139033:37
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:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=29.0)
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:
TTGGCGTCAACCTGAAGGATG
R:
TGGGGAGTTGAGATCGCTCTC
Band lengths:
257-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]