DreINT0090865 @ danRer10
Intron Retention
Gene
ENSDARG00000006921 | lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:ZFIN;Acc:ZDB-GENE-050518-2]
Coordinates
chr25:10554910-10557112:-
Coord C1 exon
chr25:10556903-10557112
Coord A exon
chr25:10555036-10556902
Coord C2 exon
chr25:10554910-10555035
Length
1867 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
TTCTAAATTCTCTTTTACAGCGA
3' ss Score
9.8
Exon sequences
Seq C1 exon
GTGCGAATCGGATCGTCCTCCAGGACTCAAACATCCTCCAGCCAGTGGGTTTGACCGTTTTGGGGGATCATCTGTACTGGATCGACAAACAGCAGCAGATGATCGAGCGCGTGGACAAGCTGACCGGAGAGAAGAGGACCCGCATTCAGGGCCGACTGCAGTACCTGACCGGCATCCACGCAGTGCAGTACATGGAGACAGACGAGTTCG
Seq A exon
GTAAGGTCACAGTTTTATTACATTACTTTCCAATGATTAATTACCATTGAAAAGTGTGTTTATTATAATTAAATATGAGTTAATTTGTAAAACTTAGTTTAATTTAAAAAAATCAATAAAAACTATAAATATCATTTAATGTAATATATATATATATATATATTATAATTATTACTTTAATACATGTTTGGTATGTAGGAGTCTGTGATTTCGTTTACTATAATTCAGCGATATATTTATTTATTTAGAAAAAAATTTATTCATTAAAAGAATTCNNNNNNNNNNTAAATATTGAAAAGCAATTTTAAAATATATATTAAAAATAAGGCTAGGCCGATATATTGAATAGCGATAAAATTTATGTCGATTACAATGATAAGGTCTGAACTTTTTTTACTTTATATTGATCTAAGAGCCAATCACACAGCAGAAATGTGCAACAATGGAAATCTAGAAGTGTGTTGATATTAGAGATGCACTGAATTTTTGCCCGCCAAAAATTATCGCCCACCAAAAATAGGTTATGTTATTTAATGGACCCTCTAATTTGTGACTTAAGTCATTGTTGGAGTAGGATACTCTCATAAATCAGGAAGCATTAACTGATTTTCTGATATCGAATATATATATCGTTATTGTTCAATATGGAAAAGAATTAATCAAGAATTAATTGCACTTTTACCATATCGACTAGCCATAATTAAAAATATTTAGTAATATTAATGTATTTGTCAAATTACATTAACTATTAATACTAATATTGGTATTAATTGACAGAAGACAAATTTGAGTTTAGTATCTAATATAGTACACAAATAAACATCTTTATGAACTCATATTATTTTAATTATGCATTAAAAATTATATATTTGAAAATGGCTAGTTAATGTTTTAGCATTACACACAATTGTGTGTGTGTGTTTGTATATATATATATATATATATATATATATATATATATATATATATATATATATATGTATATGTGTGTATATATATATGTGTGTATATATATATATATATGTATATATATGTATATATATATTTGTATGTATATATATATATATATGTGTGTGTGTGTATATGTATGTATATGTGTATATATATATATATATATGTATGTATGTATGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACTATTAATTACTATATATATATATATATATGCTATATATAGTGTATGTATGTATGTATGTATGTATGTATATATATATATATATATATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAACAAATCCATGCAAAACAATTTTCTTAAATAGATATTTAAAATTATATGTAATTTGTATCATACACAATATGTTTTATATCTAAATCTAAATAACAAAATATATATGCATGTCTGAGTGTATTTATATATACATAATAAATATACACAGTACACAAATTTAAATTATGTCAAAGCAAACTTTTATTTTGGATTTGATTATTATCGATTGCACTAATATATAATAATGCAAATGATCAAACTATAATTCTAATTTCACCTGGAGTGAAGCTACGCAACTGACATGTATAGGTCATGTGATGATGACAAAATGGTGAATGTAGTACATCAGAGTTCCATTCATACTAATCACATTTATATTGTATCGAACATACTTTTCTTACGGCCGAGTGGTACCTTTAAGTTCAAATGTAGTACCTACTGAGTACAGAGCGATTTCGGAAGCAGCATATGATAACATTTTCTAAATTCTCTTTTACAG
Seq C2 exon
CGACCCACCCGTGTTCCCGTGACAACGGAGGCTGTTCACACATCTGCATCGCTAAAGGTGACGGGACGCCTCGCTGCTCGTGTCCCATGCATCTGGTGCTGCTTCAAAACCTGCTCAGCTGCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006921:ENSDART00000121724:17
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=PD(48.7=26.8)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0)
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:
GTGCGAATCGGATCGTCCTC
R:
CCGCAGCTGAGCAGGTTTT
Band lengths:
334-2201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]