DreINT0090879 @ danRer10
Intron Retention
Gene
ENSDARG00000006921 | lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:ZFIN;Acc:ZDB-GENE-050518-2]
Coordinates
chr25:10579102-10581216:-
Coord C1 exon
chr25:10581000-10581216
Coord A exon
chr25:10579392-10580999
Coord C2 exon
chr25:10579102-10579391
Length
1608 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTCTCTGTTTGTCATTCAGGTA
3' ss Score
11.19
Exon sequences
Seq C1 exon
GTCATAAATGTGGACGGCACTAACAGGATGACTATTCTGGAGGACAAACTGCCTCATATCTTTGGTTTTACGCTGCTGGGGGAGTACATCTACTGGACGGACTGGCAGAGGAGGAGCATCGAGAGAGTTCACATCGCCAACTCCACCCGAGAGGTGATTGTGGAGCAGCTGCCAGACCTTATGGGCCTCAAAGCCACCAAAGTCATGGAAGCTGAAG
Seq A exon
GTGAGAGCTCAGCTTTTTCTGGCTTTCCTGACTTAAAATTGAGACGGTGGTATCAGCATTACTCTGAAAAGTACACTGAAAGTTGTAGTTTTATTTTTATTATTTAAGATGATTATTAATTGTATTTAATTAACTAAGAGGGTAAAATTAAATCTGATAAATCCATTTTATTATTTACTGTGCGTGTAGGGCTGGGGAATATGGCAAAAAGAAAATCCCCCTAAAGTATGATCTATTGATTTGATTTTTTTATTTGATTGATTTTTTATTCTGTGTGTAACTAGTCCGTTTTATGACAACATTACAGATCATTCTCTTAATTAGTAACTTGAAAACCATCTGGTTGTGTGCATGTATATTTCTGTGTTTTTCAAATATGCTTGCATATACACGCATTACACGTTATTATAAAGAAAGGTTCTTATTATTATTATTAATATTATTATTAAAGATTTATTTTTTAAAAATTACATTTTTTAAACATAAACAACCATCAAGGACAGAGGTGGAAAAGAAAAAGGAAAAAAAATAGAGAATACAAAACAAACTGAATGGGTACACAATTGGATCAGAAACACTAAGTAGGGAGAAAGACAGACAGACAAATAGATAGATAGATCTTAAATATCTTGATATTAAAGTCTTGATATTAAAAATCAAGTCAGAAGATTTTTTTTTTTTCATGAGGTAGTTATGTTGAGATGATATTTATGTATATTCTTCATGATATTAATTTTATTTACTGATATTAATTAATATAATTATTTTTAGGGGTTTTTCACCTTTATTATGATAGGACAGTGGAGATTTCAGACAGGAAATCATTGGGAGCAGAGAAAGGGGGAAGGATTAGCAAAGGACCTTGAGATGGGAATCGAACTCGGGTCACCTGAGCTTGTCGGTGCTATATGTCGGCGCACAACACCACTAGGCTATTGGCGCCGACATTTACTGATATTATAATTTATATAATTTATATGATTTTATAAAATATTAATATTAGTTAACTTGACAACTAATGTTCTTATTTAAATAACTAATGAAGGATTCAAATGACCTAGTGTATAAAGACTTAATAGAAATAATAAAAAGTACTTAAAATTGACACAAAAACTTCATTAAAATACTCAAAAGCTCATCTATTAATACTATAATAGACTATAGATTATATATTATATATTATATATATATATTATATATTATATATTATATTATATATTTACTAAATTGATTATAATACAATGACATTGTTTATTATTTAACATTAATTATTACTAGTTTATTATTAAACAAAAATAATTTTTTCATAAAGTGACGAAAGTAGAAATAAAACTGTAAATTTAAAAGGAATCTTTTAAAAGAACATGAGAAATAAATCTATTATTAACCACTATAATCGTATAATAAATAATACTAAAATAATATTAATGATAATACAGATAGAAGTCAATATATTACTTTTCTTAATTATTTAATATTGAGCTTTATTAGTTTGAATAAAAAAGTCCTCTCCGACCTAAACTGATGGCCTCAAACACTTTCATTAAATCACAATAAGGTCAACATCTGTCCATGGATCTGCTGCATTTCTCTCTGTTTGTCATTCAG
Seq C2 exon
GTACCAACGGCTGTGCCGAAAACAACGGCGGCTGCAGTCACCTGTGCTTCCATCGGCCGCAGGGTCTGAGCTGCGCCTGTCCCATGGGCCTTGAGCTGCTGAGCGACCTGCGCACATGTGTGGTTCCTGAAGCCTTCCTGCTGTTCACCAACCGTGCCGACATCCGCAGCATCTCTCTGGGCACCAACAGCAACGACGTGCCCATCCCGCTGACCGGCGTCAAAGAAGCGTCCGCGCTCGACTTCGATGTTTTAGAGAACAGAATCTACTGGACTGACGTCAGCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006921:ENSDART00000121724:9
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(61.5=32.9)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=37.1),PF0005812=Ldl_recept_b=PU(24.4=10.3)
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:
GTGGACGGCACTAACAGGATG
R:
CAGGAAGGCTTCAGGAACCAC
Band lengths:
348-1956
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]