DreINT0090462 @ danRer10
Intron Retention
Gene
ENSDARG00000029146 | lrp1ab
Description
low density lipoprotein receptor-related protein 1Ab [Source:ZFIN;Acc:ZDB-GENE-030131-7126]
Coordinates
chr23:25592952-25596033:-
Coord C1 exon
chr23:25595884-25596033
Coord A exon
chr23:25593096-25595883
Coord C2 exon
chr23:25592952-25593095
Length
2788 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TTTGTTTGTTCTATGTGTAGGAG
3' ss Score
7.65
Exon sequences
Seq C1 exon
GCTTGTCCATTGACTTCGACTCAGAACAATTGTACTGGATCAGCTCAAGGAACAGCACCATCAACCACTGTAAGATGGACGGCTCTGGGTTGGAAGTCATTGAAAGCGTGAAAGGAAAACTCACCAAAGCTACAGCCCTCGCCATCATGG
Seq A exon
GTGAGAGAAAATAGTCAAGCTATAGTCACCAATGCTAGAATAAAGTCTGTTGTGTTAGATTGCCTCAAAGTCACAAGTTATTTGTAACTCATACGACTAGTTTTTTTTTGAAGGTGAATTTATATGTAAAATTCACTTTGTAAGGTGTTTGAACACAGATGTGCGTCAACACTTTGTAAAAAAAGGCCTGCAATGGTAAAAATGCAGCCACTTTTTATAATCCCCATAAATGTGTGTTTCCAAACACCAGAATTGTTTTTATACTGCACCAATGAACATATGACTTTCCAAAAACTCCTGAGCAACTGAGGAAATTGTGGTTGAAATAAATTTGTAACGGTAATGTGCCAAAGAATATTAGTAAAGTGTTATATTTGTGCCAAATCTTTTTTACGCCTGACTGCTTCCCCCAACAATGGCCAGTTCAGAACAACCTCATATTTAAATCAAAAATGTCACCTCAAATTTCGAGAATTCGCTTACTGCATGTGCTTTTTTAACATGCTATGTTGCTAATATGGCTGAAGTTTAGTCTCTTCTCTGACTGATTTTTCCAGTGACCAGAGCTGTGCTGTTTATTAACACACTTTTATTATGAACTATACTGTCCGGGCCGCTGCTGGCCAAAAGGGTGCCCTATGTGAAATTATACTGTGGTGGAACAAAATCACACAAACATATGTGTTTAAACATGTACTTATTTATTTATTTATTTATATATGCATATAGACACTCATAATTATACTTAAACATTTAAATATTTATACATGTGTTCTGCAGAAACATTCCTAATTTTCAACATTTACAAAAGGTAAGGAATCAAACCCTCTCTGTACCCGTAAAGATGGACGGTCCTCAGTGCTTCATCCTGTGTCTGTACCTGTGCAGCTGCTGGTGTCTCTGGAGCAGTTCTGGTCATGCCACAAATTTCAGCATTTAATCTTTAAATTAGTCATTTGAAGAAAAACTCATAACACACCATTAAGACAATGAGTTTATCAAGCACTCTTCATAATGTGTCTAAACTATAACCAAAATGTGGATTTAACCTGCACTTTAATCTATGGTGACAAAAGCTGGCCCTTGCTGTCAGTATAAATCAAAGATATTTGTGGTTTTTAAGAATTAATGAGTGTATTTTTAAACAAAAAACTTTGTTAAAATTCAATAAAAATAATCATTAATTAATTCATGCAATAAAAAGGCCTGTGGCTTTCAGTAGTTTGACTCATTTTATATTATTGATCTTTCAGAAAGCACAGAATATTAGTCAGTTTTGTTATTCCATATTGTAATGTACAAAAATGAAAAACCGGCATAATAAAAACACACCAATCCACTGATATTAAGATTAAAGACACTTTATTGTCATCGCAGTGACATAAGCAATAACAACAGCAGCAATAAGAAATGTATAGAAATAAACAAAACAATAAACAATGATAACTGCAAATAATTATATAATGTATAATCTTATAACATAATAACTATATAATAATAAAAATACATCCAGTGTAATAATTGTGCAGTGCATGTTTATGTACAGTAACTGGTGTGCAAACAGAATTGTAAAGTATTGCACAAGTAAGTTAATAAAAATAATTGAGTTTGTGTAATTATCAGCAACATGGGGAAGAGGGGCAAACGCGAAAAGTCATAGATCATGTCCTGTCATAGGTAAAAGCATAATGCACAGCAGCAAAGCAAGAAACTGAACGTAAACAACAACAAATAAGGAAGGTTTGATACAGTTGTGGAGGAGTTTGAACATTAGCCTCACTAATTTACTTACTAATTTACAACCAAAAATATGTTTTCAAGATTCATGGAAGTTTCCTGAAAGTGATGGACGCGATTCATCTTGTACTTTTTTCCTCTTCTCGGCTCCAGACTGCTGTTGTCTCTTCCTGGGCATATAGCTGCAACTTGCATCAATTATAATTATATGCAGCTAGCAAATGCAAAGCTAATTCGACCGGGCTGCGTGCTCGCGGCTATGCGTGTACACGGAAAAACATTACGTCATGTTTTTTTTCGCCTATTATACAATTATTTTTTAATGTATTTAACAGAATATTATTAATATGTATTTTATTTACACTCAGTTTATGTTGATATTACTTAATAAATATCAATATTTTTTTGAGCAGCCGAGATGGTGCCCCCCTCTAGGCCCTATGCAGTCTGCGTATAGGGAGCGGCTGTACTGTATACCGTATAAATAGGTGACAGACCTTGACGTTTTTAGGAGGATAAGTGAAATTTACTATAGTGTGATTGTGGAGAGGTTAGCATGATCGAACACCCAATGAGGGGGGAGTGCATGCTCAGAGCCCGGCGGCTAATCAGCAGGCCAATCAGAAATAATAAATAACACCTGTTTATTCTAGTGATTGGGCCGGAGAGACTCCCTTCTTAAGGAGAACGGGAGGAGCAGTCGGGAGAGGAGGGAGAGAACACACACACACACACACACACACACACAGCTACTGGTGTTGTGCACTTATATAAAAATAAAAACTTCAACTTACCTTATATCGCCGACCCTGTCTTCTTCTTCCCACACAACAACCAACTTTTTTTGACATTTTATCTGCATGAGATTGGCTTGCTGTGTTGTTTCTGGAGTGTCAGAATAGCATACTCCGCAGCTCCTTTGCATTTAAAGGGGCACAATTTAAAATGCCGTTTTTCCTCAAATCCAAATGTATCTACTTCAAAGTTATGTAAATGATTATGTCATTTAGAGTGACTCACTGGCCTTTATTTTTGTTTGTTCTATGTGTAG
Seq C2 exon
GAGATAAGTTGTGGTGGGCCGATCAGAGCACAGATCAGATTGGTACGTGTGACAAGAGCGATGGAGGCAACTGGAAGGTTCTGCGATATCACACCTCACCCATGATGCATATGAAGATCTACAATGAAAGCGTGCATCAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029146:ENSDART00000088208:32
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(8.3=5.9)
A:
NA
C2:
NO
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:
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]