DreINT0090751 @ danRer10
Intron Retention
Gene
ENSDARG00000102506 | lrp2a
Description
low density lipoprotein receptor-related protein 2a [Source:ZFIN;Acc:ZDB-GENE-050119-2]
Coordinates
chr9:48942956-48944203:+
Coord C1 exon
chr9:48942956-48943072
Coord A exon
chr9:48943073-48944065
Coord C2 exon
chr9:48944066-48944203
Length
993 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
TGCTTGTGTTTATTTTTCAGCCA
3' ss Score
8.41
Exon sequences
Seq C1 exon
AGCTGCGGACCTGCCACCCGGGTTACTTCCAGTGTGCGAGTGGACACTGCATCGCTGAGCGCTTTAAATGCGACGGCAACGCTGACTGTCTTGACTTCACTGATGAAAGTTCCTGTC
Seq A exon
GTGAGTGTGACATGCTTTTTAAAGCTATCTTAAGTCTGAAGTGCTGAGATAGTCACTAGAAGATGGATTTTGGTTATCATGCAGCGCCCTCTAGTGTCTAAAAGTGTGAAAAATAGAAAAGTTTATTATTATTAAGGTGAAAAACACTTAGATTTTTTGTTGGGTCATAAAGAAAATGGATACAATTTACACAAAGTATTGCAGTATACATTACAAATATATTTACATATACATATAGAGATCTGAAATATGAAAATATATGCTAATTATGCTAATTATTAATAGTTTGGAACATAAACAGCGGAAAAATTATTATCTTGCTTAAAAACTCACTTAATTCTGACTTATTATTTCTGAAAACAAGACAATATTTTTTGCTTGTCTGGAAAATGCTTCTTGTTTTAAGAATTATTTGTAATTTCAATGGTTGAAAAAATTATATATATGTTATATATATATATATATACATACACACACACACACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTCATGTATCCGATTGGTATGTCATGTCATATACTGTATGTATGTAATTTTTTATTCATGTCTCCTCATAACTTTCAGTCAAAATACCTTCCCCTCCACCGTTTCAACATTATCTCTTTTCTGATAAACCTCATATCACTCATGTGAGATCCACTAATAGCGAACCACAATCATTTAATTAATTCGCCACAGAATTGCTTCATTTTTTATCTTTTTTGAGAAGCCATTCAGATATACAGCCCATTATCATAAACATCAGATTCTTGATTGCAGTGTTGGTCGCTTTTGTATGTTAAGTTTGATAAGCAAGTTTGTGCTGAGTTTGAGATGCTTGTGTTTATTTTTCAG
Seq C2 exon
CCACACGCTACCCGAACAGCACCTACTGTCCACCCTTCCTGTTTGAGTGTAAGAACCATGTGTGTGTGCAGCAGCACTGGATATGTGATGGAGATAATGACTGCGGGGACAATTCAGATGAGGAGCTGCATCTCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102506:ENSDART00000167243:61
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:
PF0005713=Ldl_recept_a=WD(100=92.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCCACCCGGGTTACTTC
R:
AGCAGAGATGCAGCTCCTCAT
Band lengths:
246-1239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]