DreINT0154448 @ danRer10
Intron Retention
Gene
ENSDARG00000013892 | sorl1
Description
sortilin-related receptor, L(DLR class) A repeats containing [Source:ZFIN;Acc:ZDB-GENE-050208-22]
Coordinates
chr15:21638653-21640017:-
Coord C1 exon
chr15:21639926-21640017
Coord A exon
chr15:21638900-21639925
Coord C2 exon
chr15:21638653-21638899
Length
1026 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGC
5' ss Score
5.35
3' ss Seq
GATCTGCATGTCTCTCTTAGCTT
3' ss Score
5.85
Exon sequences
Seq C1 exon
GTGTCCAACTCTGATGGAGACCTGAGACGCACTCTGGTCAACTCTTCAGTGGTGGACCAGCCTCGAGCCCTGGCACTCATGCCAGCAGAGAG
Seq A exon
GTGTGCTTTATTTTTTCCACTGTAATGCCTCTCTTATCTTTGGTTTTAACAGAATTTAGATTTTTTGTGAAATTACACTAAACATACTGGTTTAATGTACAGGTGATATTAGAGATTTATTGTGTAACATATATCAGTTATCAGCTGATATTTGAGAAGTTGTTTATTGTATCATATATCTGTAACGCATCAGTTATTGGCCCATATTGAAGAACTGTTTTAATGCATCACTTATATTGGCACCTTGTTTCGGTTATTAGCTGACATCAAAGAAATATTTTTTTATTGGTAAATAATTTTATTGGTAAAATAATGTCTTGTCAGCTTGAATTAAAGTATTTTTTTATTGAATCCGATATATCGGTATGTACAGGTTATGAGCTGATATTCTTCTTCTTTTTTTTTTTTTTTGAATTAACTTAATCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGGATAGGCTAAATTGTCCGTAGTGTATGAATGTGTGTGAATGAGTGTTTGTGGATGTTTCCCAAAGATGGCTTGCGGCTTGAAGGGCATCCGCTGCATAAAACGTAAAAATGTGCTGGATAACTTGGTGGTCCATTCCGCTGTGGCGACCCCAGATTAATAAAGGGACTAAGCTGACAAGAAAATAAATGAATGAATGAATGAAATGACTAAATATACTAGCATAATTTATCAGTTATCAGCTGGTATACATTTTTTTTTGTTTTGTATTGTATCAGATATATCGGTTTCATAGTATTAGCTGATATTAGAGCATTTTTCTTGAAAATGCTTAAAATATTGCCATCATTTATTGGTTATCAACTGAGATTAATGATTAATTTGGATACAGAAATATCAGTCATCAGCCATCTCTTTGAAAATGTTTGTTTTATTTGAGATATATCGGTAGTACCTCGTATTGTTTTCGACGGATAATAGAGAATTTTAGGTTTTAGTGAATTTTTTTTATTTTGTTATTATTTGTTTTTGTGAAAAGGATTTTCACTGATCTGCATGTCTCTCTTAG
Seq C2 exon
CTTGATGTTTTGGACAGATTGGGGTGATCGTGCAGCAGGCGTCTACCGCAGCTGGATGGACGGCTCGAACATCTCCTGCATTGTGTCAGAGGGAGTCCGCTGGCCTAATGGCATTACAGCTGATGAGTCGTGGCTGTACTGGACAGAGGCATATGGAGACCGCATTGAACGAGCTGATTTTAATGGAGGAAGCCGCACTGTCATAATGGAGGGCCTGCCTCATCCTTACGCTATTGCTGTTTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013892:ENSDART00000156995:19
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(64.3=87.1),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=51.8),PF0005812=Ldl_recept_b=WD(100=47.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAACTCTGATGGAGACCTGA
R:
GCAATAGCGTAAGGATGAGGCA
Band lengths:
326-1352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]