DreEX6080845 @ danRer10
Exon Skipping
Gene
ENSDARG00000029146 | lrp1ab
Description
low density lipoprotein receptor-related protein 1Ab [Source:ZFIN;Acc:ZDB-GENE-030131-7126]
Coordinates
chr23:25526115-25532090:-
Coord C1 exon
chr23:25531997-25532090
Coord A exon
chr23:25529016-25529160
Coord C2 exon
chr23:25526115-25526561
Length
145 bp
Sequences
Splice sites
3' ss Seq
GTCTGTGTTTGTGTCTGCAGTGC
3' ss Score
9.16
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
ATACTCCATCTGTGGTCATCCCGGTGATGTTACTACTCTTACTTGCACTGTTGGTGGTCGCTGCCATCTTGTGGTACAAGAAGAGAATGCGTGG
Seq A exon
TGCTAAGGGATTCCAGCACCAGAGGATGACCAATGGAGCCATGAATGTAGAGATCGGGAACCCGGCGTACAAGATTTATGAAGGAGAACCCGATGATGATGCAGGGGAGCTGCTGGACTCGGACTTCACACTGGATCCAGACAAG
Seq C2 exon
CCCACAAACTTCACAAACCCCGTGTACGCCACGCTCTACATGGGTGCACATAACAGCCGTAACTCTCTGGCCAGCACAGACGAGAAGAAAGAGCTGCTGTCTGCAGGAGACGATGACATGGGAGACCCGCTGGCGTAGATTACCGGCCACACGCCACCCTCACGCAGACCCATATGCCTTTACATGACAGATGAAAAGCAACAAGAGCGGGAACACTGTACAAAATGTAACAAAAAAAAAAGATAGGAAAAAAGGACACTTTTGTATGTGATTGCAGTATTATATTTTATTCTTCAAGAAATCCTTCTGGTCAACAAAAGAAAACTTTTTTTTTTTTCAATGCTTTTATTTTCCCTCCATTTTCAGATGTTTGCTTGCTTAATTTTTTCGCCCTTCCCCTCCATTTAGCCACTACCTCTGTGCTCGACAAAAATATGGGAAATCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029146-'90-104,'90-103,92-104=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.163 C2=0.511
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCCATCTGTGGTCATCCCG
R:
CGTGTGGCCGGTAATCTACG
Band lengths:
245-390
Functional annotations
There are 3 annotated functions for this event
PMID: 15115822
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, glutathione s tranferase tag, knock out, mutation analysis, pull down. ELM ID: ELMI001560; ELM sequence: EIGNPTYK; Overlap: FULL
PMID: 16382151
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, glutathione s tranferase tag, knock out, mutation analysis, pull down. ELM ID: ELMI001560; ELM sequence: EIGNPTYK; Overlap: FULL
PMID: 18381291
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, nuclear magnetic resonance. ELM ID: ELMI001543; ELM sequence: EIGNPTY; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]