DreINT0090761 @ danRer10
Intron Retention
Gene
ENSDARG00000102506 | lrp2a
Description
low density lipoprotein receptor-related protein 2a [Source:ZFIN;Acc:ZDB-GENE-050119-2]
Coordinates
chr9:48956064-48958885:+
Coord C1 exon
chr9:48956064-48956284
Coord A exon
chr9:48956285-48958705
Coord C2 exon
chr9:48958706-48958885
Length
2421 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GATGTTTGTTGTGTTTGCAGACA
3' ss Score
8.35
Exon sequences
Seq C1 exon
TAAGATGTTCTGGACGGACTGGGGCAGAAAGCCGAGGATCGAGACCGCATGGATGGACGGTCAACAAAGAGAAGTGCTTCTGGATGAAGATCTGGGCTGGCCTACAGGCTTGGCTCTAGACTACCTAAATGAAAACCGCATCTACTGGTGTGACTCAAAAGAGAACATCATCGAGTCGATGAAAGTGGACGGGTCCGACCGGCAGATCATTATATCTGGAG
Seq A exon
GTGAGACACTGAAACTGACCACCTGAAAACTTATTTAACGGTATAGTTTACCCATAAAATGAAAATCACCCCTTAATTTATCCTTTGTGTATGTCACTTTTTTTCTTTCAGACGATTATAGTCGTACTAGTTTTCACGTTTGTCCTGGCTCTTTCATGATGTATAATAGTGTTGGATAGGGGCTTTTATTTTGAAGCTTCCAAAATCGCAAATATCCATACGATCCATACGAATACCCATATGCTGACAGGGGATTAACATATGTCTTGTAAAGCAGATTGATGTGTTTTTGTAACAAAACTATTTCTAACGGTTCCATTATAAACTCCAATCAATGAGCATTGGCAACAGCCGAATCCACGTTATGCGCAACTCATGTATATGTCGCATGCACACATTGTAAGAGTAATAAATTGTAACGCAGTAACTTTTTTTCCACTATCCAACACCATTATACAGCATGGAAGATCCAGAATAAACTTTAAAACTACTCCAACTGTGTTCATTTGGCAGAAAAAAATACACGATATACACCAAAGACAGAATATTATGGGCTATTTTTCGTCTTTGGGTGAACTAAGAGCCATTGCAAAATTTAAAACAGAAATTTTCTATACTAAATCTAAACTAATCTTTTTAAGCTGTACCTCTCGTGTAGATTTCTGAATAGTTATATATTGTTATCCAGTAATAGTACATGCATGGCTATAGTTTTATTAGGAAATGTCACCGGATGTCAAGGGAGCGAAGACAAGAGGTTGGATCCAAATGCAATTTTTAATGAAAAAGATTATTCGTGCAGGCAAAAACAAATGAGGTCAAAAAACAAGAACTCAGATATCATGAAGGGCATCGAAAAATGCAAAAACAAAGCGATGATCAAGGTACAAAAAAATTACAAAACAATCATCAAAACATAACTAGAAAAACTAAACAGGACGACACTCTCTGAAACCATACAGGTACTGACAAACAAAGATTCCGCCTTGACTGGTGTGTGCAATGTGTATAAATAGTGCAAACCATTGATGATGACAATATTCAGCTGTGTGATTAATGGTTACTGGTTTGTGCAAAGGCATGCTGGGATATGTAGTTCATGAATGACATGTGTAGTATGCCAGCGATCTTTCAGGAACAGATTGCTGGTTATGTGACAGGAAATGGTGATAGTGGCTGTTTTCAGTATGCATTCTTGTCTGTACTTGCGTTCTTGTGTCCTCGTGAAAAGCCATCAACCGTCTCCGAAGTACTGTTCCAATTCAAAGTTCACACCTTGCCAAGTACAGATAAAATTCCCAGATGTGTACTTTCTCCACCCCTTTTGCCAAGGATGCTTCGAGAGGTGACTTATGTGAACTTCAACTTACTAAGAACAGGTTTCACAGAATGCATTGCAGCGTAACCAGCGAAAGCAAATGGCGGAGAAGAAAACCCGCACGATTTTACAAATACTCCTCTGTTGTGTTACAAATGAAAGTTTTAGGAGTTTTTTAGGCAAGAATGTAGGTTTTTTTAAACTCAAATCGGCAGTTTGTTTATAAAGATCGCGGGAATAACAGCGGGAATTTCATGATATTTAATGCATTTTGGTAGCGGTAGGTGGCAAAACATACATAAACATTTCAAAAGTTCACACTTAGCTGATGAATGATTATAAAGCTTGTTTGGCATGCTGTCCCAGGAGAGAGCCCTAAGCTCATAAGATCCTCGAGTCTGGGGCTCTCTCTCATTTGCAAGGCAAGAGAGGAGTTTGAGCTCAGGTAGATCTTAAAACAGATAGGGGATAGATAAAACCAACAAGGGTCAAAAACACAGCTAGACAACCCAGGAAAACACCTTGTAATGCTCACTACAGGGATAACAAGACTCAGCAGAGGAGTTCTGAATGGTCTCTATATTGTCATAGTGATCAGTGGTGATAAACTGCAGCTGTGTGTGTGTAATCTGGAGGTGAGCTGAAACTGGTGTGTGAATGCAGGCCATGATGGGTTTTGTAGTCCGATTCAGTGGCAGATGTGATGTGTTGAGTGCCCTCTAGTGTGTCTGGTGAGGACTCTACTTGATGACTGTGACAGGCGACTAAAAATCACACATCCTATTTGTGCCTAGGCAAACTTCTTCAGACTTTTTCTTCTTTTTACTTTTACATAAAATTATTCATAAAAAAATGCTTTTTTTGATTTCCCAGTATTTTATTACAACCAAATTAAATATCTGTAAGATTTGTCTCAATTTAAATTCCCTTCTTTTAATTATGCAAAAAAAAAAATAATAATAAATTTTAAAAAACGTAAAAGTGTTTTTTTTTTTGTAAAACAAGCCCAAATTAGATTTCTATTTAAAATCATTCAAGAAATTGATTGATGTATATTTGGTACGTAAAGGGTTGAGCTGTGCTGATGTTTGTTGTGTTTGCAG
Seq C2 exon
ACATCGGCCACCCCTACAGTCTGGATGTGTTCGAGGGCCACGTTTACTGGACGACTAAAGAGAAGGGAGAAGTGTGGAAGAAAGATAAGTTCGGGAAAGGAGACAAGGTGAAAGTGTTGACTATAAACCCCTGGCTGACCCAAGTGAGAATCTACCAGGAGCATCGACACAACCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102506:ENSDART00000167243:70
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=56.0),PF0005812=Ldl_recept_b=PU(70.7=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(26.8=18.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]