DreINT0090860 @ danRer10
Intron Retention
Gene
ENSDARG00000006921 | lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:ZFIN;Acc:ZDB-GENE-050518-2]
Coordinates
chr25:10573212-10575081:-
Coord C1 exon
chr25:10574897-10575081
Coord A exon
chr25:10573536-10574896
Coord C2 exon
chr25:10573212-10573535
Length
1361 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
AACATTGTTATCATCTGCAGGTC
3' ss Score
9.33
Exon sequences
Seq C1 exon
GTACATGTACTGGACTGAATGGGGAGGTCGACCCAGGATTGCTCGCGCTCACATGGACGGCAGTAACATCGTGACTCTGGTGGATAAAGTGGGACGAGCAAACGGACTCACCATTGACTATATCGACCAGCGGCTGTACTGGACAGACCTGGACACATGCATGATCGAGTCCACAAACATGCAAG
Seq A exon
GTACAAATACAAGCCTTTTAAAACCATCTTTCTTGCAATTTTTGAGTTTATTTCTCACAATTTTAAGTTTATTTGACATTTTTGTGTTTATTTCTTGCACTTTTAGTTTATTTCTTACAATTTTGAGTGTGTCTTGCAATTTTGAGTTCATTTCTCACATTTTTGCGTTAATATCTCGCAGTTTTAAGTTTGTATATTACAATTCTGGGTTTATATTCTTTAATTATGTGTATGTATTTAACAATTCTGAGTTTATACAGTTATATTCTGATGTTTTTTCTTACAGTTTTAAGCTTACATCTTGCAACCAGCTTATTTTCTTTCTCTGGGCTCTATTTTGACGATCCAGGCACAAAGTACAAAGCGCAGGGCGCAAAAGTGTCAGAATCCACTTTTACATTTTTTTAAGGATGAAAAAATCCGCTATGCGCCACAGAGCCAATAAATTAATCAGAGTCTCATCTCCCATTCCTTGTAAGAGTCAGTTACAAGAGTGCTGAGCTGCCATACAACTGAGTGCTTCACTAGCGAGAAAACAGTTAAACAGAGCATCTGCAGCACGAGAATAAGAGATGAGCCTCCTCATTCTTTACTTTCACTTTCGCTCCATCAGCCTACAAAAATTCATTTCGTTTGTTACTTCTAATTTCCAGCAAATGAATAAATAAACAACAATGACGAAAAAAAAACTGAGTTATATCCAAATACACATGCTTTATGCCTCATATGGTCTAAAACCTGACAGGTGGGCAAATCTAAGCTTGTTTTTAATAAAACAAATATAAATATGGATATAATAAATAATACTGCTAATAATAACATTATACGAAAGCAAATTGTCACAAATAAACTGAAAAAGCCCCCCGTGAGATGAAGAAGGCATGAAGGCAGTGGTTTTTATATTTATGTAGAAAATAATACTTTTTGCAACATTTTATTCCATTAATTCTTTTTCATATGTAAAGATATTTGCGTATGGCTGTACATCCTGTGTGTATTAAGCAATGTTTAAACGAGGCGCACAACTAACGTGCTCTGCGCTGGTCTGTTGACCTCCTCTCAGCTGGTCTATTGAACAGTCTATTTTAGTACCTCAAAATAGCAACGCGCCAGCAATGCGCCTTAACTCACCTCCTTTTTTAGACCAGAACGCCTATGGGCGCACATATTAGGCAAATGCATTTGCTATTTAAACAGCGTGGCGCAAACCGTCAAAATGACTCCGAGCGAAACTAGCAAACAACAGTTGCGTCGCACCGCATTGCACCGGGTGAATGATAGGGCCCACTTAGTTGATTAGTAAAACAAGCTTTCACACCATCCAAGCTCTATTAAACTAAAAACATTGTTATCATCTGCAG
Seq C2 exon
GTCTACAGCGAGAGATCGTGGCTGATGATCTTCCTCATCCGTTCGGGTTGACCCAGTATCGGGACTACATTTACTGGACGGACTGGAACCTGCGCAGCATCGAACGGGCTGACAAGCGCAGCGGCTTGAACCGAACCGTGGTGCAGGGACACCTGGAATACGTCATGGACATCCTGGTTTTCCACTCCTCCAGACAGGACGGTGCCAATGATTGTTCACAAAACAACGGCCAGTGTGCCCACCTGTGTCTGGCATCCCCCTCTGGAGCCCAGTGTCGATGCGCGTCTCACTACACCCTGGAGGCCAACGGACGCAACTGCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006921:ENSDART00000121724:12
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:
PF0005812=Ldl_recept_b=WD(100=65.1),PF0005812=Ldl_recept_b=PU(51.4=30.2)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(45.9=15.6),PF0005812=Ldl_recept_b=WD(100=37.6),PF146701=FXa_inhibition=WD(100=33.0)
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:
ATGGACGGCAGTAACATCGTG
R:
AATCATTGGCACCGTCCTGTC
Band lengths:
346-1707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]