DreINT0090654 @ danRer10
Intron Retention
Gene
ENSDARG00000061517 | lrp1bb
Description
low density lipoprotein receptor-related protein 1Bb [Source:ZFIN;Acc:ZDB-GENE-070912-401]
Coordinates
chr9:36776129-36778537:+
Coord C1 exon
chr9:36776129-36776251
Coord A exon
chr9:36776252-36778396
Coord C2 exon
chr9:36778397-36778537
Length
2145 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
AGTCGTCACTCTTCACACAGTGT
3' ss Score
5.61
Exon sequences
Seq C1 exon
CTCCAAATAACACATGTGATGAGAATTCCTTCAGATGCCTTAACAAAGGCTGCATTCCTAAACGCTTCGTATGTGACCATGACAATGACTGCGGAGATGGCTCAGATGAATCGCTTGAATGCG
Seq A exon
GTAAGCATCTTTCCTGCAATCAATCTTTCCTGCAATTTTCAAACTTTGCTAATAAATGACATTCATTTATTTATTTCATCAATACGTCCTAAGAATTATGCCTTAAACATCTAACAAATGCAACGTTTTTATTGAGAAATTACGATCTTTGATTTCTGTAGTTGCCTATTTTGCCCTTTAGGAGTTAGGAAATACCAATATTATTCATAAAATAAATCCAATACCACCAAACCAACAATAAATTAGTGTAAATGTGCAGTATTTGAATAGAAAATGAGGCATTTCTCTGTTAATTAAAGCTTTACAGTGAGCCTGAGGCAGCTCTGAGCTCGTATTATTTGAACTGTACATTCTTAATCAAGAAGAACAATTTCAAGACAAGTCAGTATTGTGCTTTAATTGTTTGGGCTTTCTAAGACTTTTTTAAAACTATGTTTCATACTTAAAACTGAAACATCTGTGGGCTGTTTGATGGAGAACTTGAGCCCTGGTCATGACAACATGAAAGGGAAGCCTCTCCACAGGACATCATCTGTATGCACACACCCTTGCCATTTATTACTGGATCTTATTGCACTGAGGTTAAAATATGAAATAGGAAGCATAGCAAATTATTCATAACAAAGAGAATCAAAGAGATAATCTCATTAGCTCTTCACTGTCATCCAAGAAATATGCTAATTATTTTATTGGAAAGTAACATTACTATGCACTTACTGTATGTTGTTTTACATCAACCATGCTTAGTTCAGTTAAAGATTAGCATTCTGTCATTGGTTACTAGCACTCTATAATACTTTTTTTTTTAGTTAATAATGTAATGTTTCTTTCTTCCTGTGGAAAACAAAATGAGTTATTTATCAGAATGTACATGGAAGTGGGTCACATTTTAGACTATGGAGATCCTAACAGAACTTTTTACAGAGCCACTCTTTTCAGAATGGCTGTATTTGTAAACATTAGTTAACTGTATTTGTTAATATGAATTTGCAATATTTAAACTTGATTCAAATAATATGTTAATCTTAATTTGAACATTTGCATATCCATTACCAAATTTGATAATGACAATTAAAGTATTCAACTAAAATATATGTGCAGTGCTCAGCATAATTGTGTATACAAAAAAAAAAGAAAAAAAAGAAGGTCTATAGTGACTGAATGTAACGTAATGTGCAATAAAAAAGTAATTTTTTATTTCATTTTCATAAGATAGTTATAGATGCATTAGTTGCAGAATTTTAAAGCAGTTTATTGATTTAAAAGCTTTTTTATTTTATATTACGTAATTTAATGCGACTACGCATTAATTTAACTTTAATTTTACCTTTAGAGCTTACAACTAGAGGCAGATTTTGTTTTTTGGGGCCCTAAGCAATACCAGTCAAGGGGCCCAGTTCCTGATATGCACCCTTTGTACTTTGATTTAATTTGTATTTATATTCACTCAATTTTCTTTTCTACATTTTAAACAATTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATTGTAAAATTAATTTGCAACTAAAAATAACAAATATATTTTTTATAAATTTGACTGCTGAACTGCTCCATGATAAATATTTTATTTTGTAATAATTTAGTTATAATTTATACTTCTATATATTTATTGGGGGCTCTCAGATTTCCTGGGGCCCTAAGCAGCCACTTACCTTGCTTGGTTAAATCCGCCTCTGCTTACTACCTACTAACTACAGTTTACCATAAGTACATGTAGTGCAACCGAAGTAAGAACAAATTTAGATACAAACTAGCTAGTAGTTATCAAGACCCTAGAGTGGACTTTACCTTCCAGTTTCAGAAAAGACTTACAAACTGGTGCAACCCTACCCTGGTGTTTTTTTTTTCTTCTTCTTCTGTTGAACACATCCATAATAACTATAGAAGTCAATAGCTACCAGTTTCTAACATTCTTCAGAATCGCTTCATTTGTGCTTCACAGAAGAAAGAAACTCAAACAAGCTTGGAACAAGTAGAGGGTGAATAAATGCTGTCAGAGTTTCATTTTAGTGTGTGTGAGCTGTCTCTTTAAGCCCTGTGTTTGGTGTCAGCGTGTGTCAGTGTGCTGACAGTCGTCACTCTTCACACAG
Seq C2 exon
TGTACCGCTCATGTGGACCGGATGAGTTTCGCTGTGCTGATGGCCGATGCCTGCTCAGTGCCCAGTGGGAGTGTGATGGTTACCCAGACTGCCCTGACCACTCTGATGAGCTGCCCCTCAACCTTAAATGCCTGGCTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061517:ENSDART00000139033:50
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=92.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=89.4)
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]