DreINT0090735 @ danRer10
Intron Retention
Gene
ENSDARG00000102506 | lrp2a
Description
low density lipoprotein receptor-related protein 2a [Source:ZFIN;Acc:ZDB-GENE-050119-2]
Coordinates
chr9:48896888-48901486:+
Coord C1 exon
chr9:48896888-48897130
Coord A exon
chr9:48897131-48901360
Coord C2 exon
chr9:48901361-48901486
Length
4230 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TTATGGATTTGATTTCCCAGCTG
3' ss Score
6.12
Exon sequences
Seq C1 exon
CATTTCACACCTGCGAGCCCACAGTGTTCACCTGTGGAAATGGTCGCTGTGTGCCGTATCATTACCGATGCGATCACTACAATGACTGCGGGGATAACAGCGATGAGACTGGCTGCATCTTCAGACCCTGCGACCCAAATACAGAGTTCTCCTGTAATAATGGCCGCTGCATTGCCAGGGAATACATCTGCAATGGAATAAACAATTGCTACGATAATGGGACCTCGGATGAACAGAACTGCC
Seq A exon
GTAAGTCGCTCAGTTACAAAAAACAAGTCACCCTTTTAATATAAGAGCTTTATATTGTATTGTAAATGTCCATTCATTGTTATGTCAGTGTATTGCAAAGCTCAGTTTAGTTCATTTATAGCTATCCACTTGTTAAGTGTGACTCCATGCTAAGTGGTCCAATCGCTATATGAAACTGCATGGGGAGTCATCAAATGGTAATAATAAACGCCTACAAAGCGCTGTATTAATTTCAAACATCATGATTGCAATATGTCCATGCCTAATATCATGGCCAGAAAGTGATAATTTTTTTCATAAGTTTCTAAAATTTTGGTATTTGTGATGCAGAGTCCAGAGACTGATGTGTACGCTACGATTTTATATAAAATTCACTTTAATGTGTGATAAGACTAAAAAGTGGTCTCAAACCAATATTTTTTCAATTCCAATGAGTAGCGGCTTGGACCCGGAAACAGTATTCCATATGTCACCGATACGCATAGCCGGCCCTCCTTATAGGCAAACTAAGGCTTAAGCCTCCTTTCCACTACAAATGACAAGCGACAGATTGGAAGTCATTCATTTCCAATGGAGAGTAGTCCGGGAGCTGCGTGGAGTGCCGATCATCTCCGTATGTGGAAAATTCGGATCCGAATTGAGCTGCGGATCCATTGAAATATTTGAACTCCTGCGACAAGACCGCATGCGACCGGCCGACTGTATTCCAGTTTTGTCCAAGCAGGTCCGTGTGCGCGAGATGAGAAATAGGAGTTTATTTATTTAGTTTTTTTTATCAGAAAAAGTCTATATTAAAAAATACATTTCTATTCAAAAATGTAAGTAATAAAATAATAAAAATATAATGTTTTATGTTGTCTCCACATTCCCTCCAATATTTTTAGCAGTCTGAGTTTCTAGTGTTCATTCATTTATTCATTCAACCACTGAGAATTGCTTTTCACTCCTTTATTTTGGACACTGCGAGAACAGCTTCTCTCCCATGGTGCAAGTCAGACTTGAAAATTCTGTGCGACTGCCACAAAAAAGTGTATTCCGACAGTCATGTCCAAATGTCATGTGCAGTAGAAAGGCGGCTTTAGGGCTCCACCGCCACTAGGGGTCCCTACAACCCACTAGTGGTGCGAGCCACTTCCTTGCTGAAATAATTTTTATTTGCATTTTACAAATTATCTTCATTGACTGCTTTTGTGTTTTAAATATTCATAAATTTTCACTGAAAATAAAAAAAACATAACTTTTTTAAAGATGAAATTGCTTTTGTCTAAAAGTCATGTAATCAACAGGAAGCTCGCAGTATCTCACTTCTCATATGTGTTCTGTTCTCGCTGTTCGAGTTTGTTCTTCCAAGGTACCCTGCAAGACCGACTGGTCGAACGCGAGCCCGTGCATGGACACAGCCATGGCCTTATACCTGATTTATTTTAGATATTGGACCAAGAAAATTTTACGAAGTTAACGTTCTTCTTCAAACGCAGAAAAACTGAGAAGAGACAAGCACAAAATCATTTTTAGCATCGCTTTTAAATGCTAATGATGATGTTAAAGACAATCTAGTAGCACATTTATTGAAAATAGACAATTACAGATTAGTGAACATTGTCTAGTTATAGGAAATCTAAAAAAAATTTCTGGTTTTACAGACCCATTTTTAGTGTAATACACATTTCACTGAAATGCACCATTGAAGCGTCTTTCACTGTCATATTTTGCCCACTGGTAATATTTTTCCTGTTAAATGTTTTTAAAAGTTATGTCATGTCATTTTCTACCGCTTATCGGGGCCGGGTCTGAGGAGAGAACTCCAGACTTCAGACCTCTCCCCAGACACTTTCTCCTGCTCCTCCAGGGGGATCTCGAGGCGTTTCCAGGCCAGCTGAGAGACATAGTCGCTCCAGCGTGTTCTGGGTCTTCCCCAAGGCCTCCCCCTGGTGGGACATGCCTGGAACACCTCCCTAGGTAGGCATCCAAGAGGCATCCGAAACAGATGCTCAAGCCACCTCAGCTGACTTCTCTTGATGTGGAGAAGCAGCGGCTCTACTCTGAGCTCCTCCTGGATGACAGAGCTCCTTACCCTATCTATAAGGGTGCACCCTGCCACCCTGCGAATGAAACTCATTTCGGCCGCTTGCATCCGAGATCTTGTCTTGTCCTTTCGATCATGACCCAAAGCTCATGACCATAGATGAGAGTAGGAACATAGATTGACCGGTAAATCAAGAGCTTTGCCTTTATGCTCAGTTCCTTCTTTACCACAGCGGGACGGTACATTGACCGCATTACTGCTGCAACGATTGGCCTTTCAATCTCACGCTGCATCCTTCCCTCACTCATAAACAAAACCCCAAGATACTTGAACTCCTCCACCTGGGATAAGGACTTTTCTCAAACCTGGCGATAGCAAACTACTTTTTTCCGGTGGAGCACCATGGCCTCAGACTTGGAGGTGTTGATTGTCATCCCAGCCACGTCACACTCTGCAACAAACCATCCCAGTGCATGCTAAAGGTCCATGTTCGATGAAGCCAACAGAACGATATTGTCTGCGAATAACAGAGATTAAATCCTGTGGTCCCCGAACCTTGGGTCCCCGAACCTCCAGCCCAAGGCTTCGCTTTGAAATTCTGTCCATAAAAATTCTGAACAGAATTGGGAACAAAGGACAGCCCTGCCGGAGTCCAACATGCACTGGGAACAAGTCTGACTTATTGCCGGCAATGTGAAGCAAACTCCTACTCTGTTCATACAGGGACGAGACGGCCCTTAAAAAAAGAATACCATGAGGGACAGATGAATGTCTTCTCCAAGTCCACAAAACACATGTGGACTGGTTGGGCATACTCCCATGAACCCTCGAGCGCCCTGGTAAGGGTATAGAGCTGGTCCAGTGTGCCACAGCCCAGACGAAAACCGCATTGTTCCTCCTGGATCCTAGGTTCAACCATCGGCCAGATCCTCCTCTCCAGTACCCTGGCATAGACTTTCCCTGGGAGGCTGAGGAGTGTGATCGCCCTATAGTTGGAGCACATCCTCTGGTCACCTTTCTTAAAAATTGGAACCACCACCACAGTTGCCCATTCCAGGGGTACTGTCCCCAATCTCCATGCGACTTTGTAGAGACGTGTCAGCCAAGACAGCCCCAAAATATCCAGTAACCTAAGATACACAAGGTGAATCTCGTCCACCCCCGCTGCTTTGCCACTGCGGAGCTTGTAAATTACATCAGTGACCTCCGCTTGGGTGATGGGTGAGTCCACCCCTGCACCAGTCTCTGCTTCCTCAATGAAAGCTATTCTGCTGTGAAAGTGGGGAGCTGTTTACATCGACTGGGGATGTTGTCGGACGGTGGAAGTATCACTTTGAGGATTTCCTTAACCCCATAGACATGTCTTTCATTGAGAAAGCTATTTCCTAATTGAATTATTCATAGTTTAATATAAGCTCTGAACCCTCATCTCAAATGTAAGGAACAGGGAAGGAAACTGAAGGAAATAATAATAAATGTGTGTTTGGGTATCAACATTAACCCAGTATTTGTTGCTTCCCTTTTCTCATTTTTTTATATGAATATTTTTCATATTTACTTTATATTATTTGCTTATTGATTTTATTATTCATGAATCATTCTTTGCATTAATGTTAATTTTTTTTTTCTTGATTTCTTGAGTTTTTAATGAGTTCAGAATGAATATTTTATTAATAAGAAGTGCATTTTCACTTTTGGCTAATTTAGTCTTTCATTGCAGGGTTTTTACTTTTAGAATTTCTTTACAAAAAAAAAAAATACAAAAAAACTCAACCTAGAATCTTTTTATAGAATCTTTAGTCTGTTTGGTAAATTAATAAAATATGTTATAAACACTCCAGAAGGAAGTGAAGTAGCAATCACTGGTCCCTTTATTAAAGATAGTTTAATTCTTCATTTTTGAAGCTGCTAGTTGACAAAAACAGTGCTGTTTTAAAATTTCAAAGTCATTCAGAGAGTCAGAAAGTAGAAGAAATCAGGCTTTACTTTTCTGTTTTATTGATTGTATTTAATAAGCAATAAAATCATTGTGAGCCGGTTTGCAATTGCAATACTCCACTATTTAGAGCAAGGTAGGACGAGGATAACCTAGCTCTGTGGAAGCCAATCATGTTGTTTATTTACCCGCATAGGTATGTGACATGGAATAGTTTGACGTTTCCTAATTTGATTTCAAACAATCTATTATGGATTTGATTTCCCAG
Seq C2 exon
CTGAGAGGACTTGCCAGCCAGAACACACCAAATGCCAGTCGACTAATATCTGCATCCCGCGCTCGTATCTATGTGATGGAGATAATGACTGCGGAGACAACAGTGACGAGAGTCCCACACACTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102506:ENSDART00000167243:46
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=45.1),PF0005713=Ldl_recept_a=WD(100=48.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=93.0)
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]