DreINT0090713 @ danRer10
Intron Retention
Gene
ENSDARG00000102506 | lrp2a
Description
low density lipoprotein receptor-related protein 2a [Source:ZFIN;Acc:ZDB-GENE-050119-2]
Coordinates
chr9:48834055-48838872:+
Coord C1 exon
chr9:48834055-48834303
Coord A exon
chr9:48834304-48838660
Coord C2 exon
chr9:48838661-48838872
Length
4357 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TTTATTTCTCAATCCAACAGGAT
3' ss Score
9.26
Exon sequences
Seq C1 exon
ATCAGGAGAGCTGCTCTGACAATAATGCGGGCTGCACTCACGGCTGCATCCAGGGCCCGTTCGGAGCCCAGTGCACGTGTCCCATGGGCTTCCAGCTGAGCAATGACTCGAAGACGTGTGAGGACATTGATGAATGTCACCCGCCGGGCGTCTGCAGCCAACACTGCTTCAACGAGAGAGGCTCCTTCCGCTGCCACTGTCAGGATGGATACACGCTGGAGGCAGACGCACGCACATGCAAAGCCTCAG
Seq A exon
GTTTGTGCTTTCTCATTTCTGACAGATATTAGTGGTTATGGACAAGCTCCAAAGGCCAACTTCACCTCTCAGGTTACCACAGATAAGACACAATTACACATACACTACTGGTCCAAAGATTTTCAAATGTTTTGAAATAAGCTGTCCAATGCTGTGTTTAATTGATCAGAAGTACAGTGAAAATTGTGTAATTCGTCACCACAGAATTATAAGGTTCTATCTGACATTTTTGTCAAAATTGAGTTATTGACATATTCTTATTAAATGACAGCTTATTTACATTATGTGATGTGTTTTTTTAAGTTGTTTACATTTTAAGACTTTTTAAATAAAAACAAAAACGGTTTATCTACAAAGTTGAACTCTATCTTGGCTCTGTAAGGTTCTTTCTGTGAGCTAATCAGCATTTTTAATGCACACACGAGGACCAATCAGGATCAGCTTTCTTTGTCATTTTGCCAGACTGCTTCATTGACAGCGGGAAAGACCAGAAAGAAACCCAAAAATCATACAAAATCCGAGTCGGCTGAATAATGCCGCATCACACAAATTGATATGTGTGTAAATGTGATGATTTAGAAGCATTTTTTGACATTGAGATTAAATGTTACATTTTACACTGTTGAAATAGAAACGAAATATTTAAAAATGTATATATTAAATGTGAAATATTTTTTATTTGTGTATATATAGTCAGTGAAACAATTTACAGTGTTTATTAAACTCATTTGCTCATAGTCTGTTTTCTTTAAAAGTCTTTAAATTTAATATCAAGTTTTGAAGGGCAAATACTTAATTTAATTTATGGGGCATATAATTCAATAAATATAGCATAAAATTCAATAAATATAATTCAATAATTTATATAAAGCATAAAGTTTAATAATTATGACCATATTAATTACATAAAATGAACATCTGCACTGGATAAAATATTTAACACAGTAAAAATAAGTAAAAATATTCATCCTAATACATTAAATAAATGTTATAGAAAGCACAAATTTTAACTTTCTCAAGCATCAACATATTGTTACAACAGCAAATTATATATATTTGGATTGTATTTCTTGAAAAGCAATTTTTCAATGAATGATCTGTAAGACAGAACCTTATAATTCCAAGTGGAAAATGGCTTTTCAGAATGAGAAGCTTCTATCTGCATTTACAGTGTTTTTTACTCCAATTTGCAAATGTAAGAAAACTTTGATAATTTACATTTAGAGTACCTTTAGGGTCTCTGTCATGTTAATGTATGAAAGAGAACTGTTACACACATATTGTTTTGTTATATGGAATGCAAAATCTTTGAAGCTCAATATTTCAAAATAATTTCAAGAGTTTACACTTAGCTGATGATTTATAAAAGCATGTTTGGCATGCTGTCCCGGGAGAGAGCCCTGGGCTCGAGGAGCTTCCTCCCGTTGGCAGAGCGAGAGGGGAGCCTGAGCTCGGTGGATCTCAGAACTCCCTTGCTGCGGTAGGTAAGGGAACACAAGGGGTTAGATAAAGCTTGATTATTATGTATGTTAAATGTCTTTGGATGGTTGGAGGAAACCGAAGAACCCGGGGAAACCCATGCAGACACGGGGAGAATATACAAACTCCTCACAGAAACACCCACCAGTGCTGTTGAACCAGGGCTGGCAGTGTTCTTGCTGTGGAGCTCACAGTGCTAACCACTGGGCCGCCGTGCCGCCCAATCAGAGGTAAAGGAGGAGAATAGGGGAGGAGGGGGGTTTCTTCCAAACGAAGATAAAGTGAACTGAAAACTGTGGCTATTTATAGTAGCTTAGGGCTCATATGATTGTAAGATAGTGATTAGCAAATGCGAGACTGGCCGTGGTAAATCATAAGCACGTGATCCTCTCGAAATTAGTTTATGAATAAACTTCACTTAGAAGGCAGTTAGAACCTTATAATTCTAAGGTGACAAATTGTCAAATATTATTGCAAATTAAAATAACATTTGGTCCCACTTCTTATTTAATAATTTAATACCTATTAAATATACTTATTATTATGTTTAGAATGTCTTGCAGAACACTTCTGCTGCTCTTGAGTTGGAATACGGGTAGGGTTAGGGACAAGTTTGGTGGTATAGGTAGGTTTAAGGGTGGGTTAAGGTGTGAGGGATGTAATAACATGCAGGTATTTAATTAATCAAGTACAATGTAAAAACATGAATTTACACGATAAGCAGGGCTTTACATTAACACCCGCCAACCTGACAAATGCAGGTAGATTTCAGCGCTGGCGGGTTAGACACACCTCCACTAGCCACTTTGGCTGGTTGGAAGTCATTTTTAATTTGTAGTTTTTTTAAAAGCAGGGTTCAACAATAAGCATGACCCAATATTCGTGCGAGTGTGATATTAGAATCGAGAAGCAGCACGACTGACAAAAATAACTATGTTCGCTCGAGCAAAAGAATGGTGAATACAGAGTGAAAGCATGATCACTCGCATGTGATGTGATGCACGCGACTGTTAAAAAGCATGTGTGCGCTACTAGCAGTTGCCCTTTCAGCTGCAACCCAGCACTGAGAAACATCCATACACACTCATTCACACACACTCATACACTATAGCCAATTTAGTTTATTCAGTTCACCAATAGCGCATGTCTTTGGACTGTGGGGGAAACCGGAGCACCCAGAGGAAACCCACGCGAATGCTGGGAGAACATGCAAACTCCACACAAAAATGGCAGCTGACCCAGCCGGTACTCGAAGCAGCAACATTCTTGCTGTGAGGTGACAGTGCTAACCACTGAGCCACCATGCCACCCAGTTTATTAAATAACATATTTTATTTACTCATTTTTACTGTATTTTCTGAGCTACAAATATAGTTTTTATGTGTAGTTTGTATACATATTTCAGTTTTAGTTTATGATCTCTGACAAATGAGTGGACTGAAGCCATGCTCGGGCTCCGGAAGCCAAAATAGACCCGGTCTGTTTTGGCTTCTCGGATTACCCCAGATAAGACAAATAACATATATGTCAGTCAGAAACTTTCTTTTGGGGTAATTAGGCGGTAATCACCAAACAAAGGCTTGTTTATAAGCTCTACCTCTGACAAGAGCCCATTCCCTTCAGATAGCCTGCTGAAAAATGCTGTCATCCGATATATCTCGTCTTCTTTCTCAATGTTTTCTCTATCCTTCTGTTTGGCCACGTTAGAGACCTCGCACATACTTTTATAAGTGAGAGCTGATGCATGGAGAACGTTTGGATTAGCTTCGAGTCCTGTCAAAGTTATTTGATGTATCTTGAGATATGCACGATCATTGTTTTGAAATCTAATCAGATACTGGTATAAAATATGAGGCATGAAATGTGCACACTCTGGGATGTTTTCTTTATTTGTGAGTCTTTTGTCTATAAAGCTTATCATTCTGCATGAATGATAAATATAAATTATGATTTTGTCCAGTAAATAGTTTTTTCAGTTTATTATAAATATTTAAATTAATGGATTTGGATAGCTAATGAAAGAAAAGCTTTAATCATGTGTCAGGAGTGTGGACATAACCCAGACGCAGATCAGCAATAAATAGAAGCTTTATTAATTCAGAACAAAAAATTGGACACTGAGCCCAGATAACAGCAAACAGGGCTGGAGATAACAAAAAACCCATGGTAGGGTAATAAGTCATTTTAAGTAGGGATGGCTGATGTGAAACTGACGTTTTGACAGCGTTGAGAAGCGCAAGGGTTTCAAAACACTGCACCAAATCATGATCCGAAACACTCAAGTCACGTGACTAAAGTGCTTCGAAGACCTGGTCACGTGACTAAAGCGATTCAAAGCATCGATCAGTTTTGAAGCGTTTCGAGACCTGGCGAATTTGCATTTGACTGCCAGGGTCAGAAAAATCTTCTGGAGTCAGATTTGAGTTTCAATAGTCATGTCAAAGCAGTAAGTAAATCAGCATACTATCATCTCATAAACATTGCAAGAATTAGATGCTTTGTTTCCAATGAAATTAGAGAAACTTGTTCATGCTTTTATCAGCAGTAGGGTGGATTACTGTAACTGCCTCCTCACTGGCCTTCCCAAAAAGACAGTCAGACAGTTGCAGCTCATCCAGAACGCTGCGGCCAGGATTCTGACTAGAACCAGGAAATCAGATCACATCACACCGGTCCTTAGGTCTTTACACTGTCTCCCAGTTACATTCAGAATATAGTGATTTTATTAGAGCATCAAATGGCACTGGAGGCTAGAGTCTTAAAAATCAGCACAGAAATACATTAAATTTGATCATAAATTTCTATTTAAAATCTTGATTAAAAGAACATAAAGTAATTATTATTAAATTGTAATAATATTTATTTCTCAATCCAACAG
Seq C2 exon
GATCTCGAGAGGCCTTGCTCTTAGTGGCCAGTCGGAATCAGATTATATCCGACGACATCCTCGCCCAGCCCAACGCTATTCGCTCTCTAGTGCGAGACGGTCGTAACATCGTAGCGGTGGATTTCGACTCAGTCACTGAGCGTATTTACTGGTCCGACACCACGCAGGACAGGATATGGAGTGCTCACAAAAACGGGACTGACCGCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102506:ENSDART00000167243:26
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:
PF146701=FXa_inhibition=WD(100=42.9),PF0764510=EGF_CA=WD(100=46.4)
A:
NA
C2:
PF0005812=Ldl_recept_b=PU(58.5=33.8)
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]