DreINT0085717 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54282538-54284846:-
Coord C1 exon
chr1:54284662-54284846
Coord A exon
chr1:54283459-54284661
Coord C2 exon
chr1:54282538-54283458
Length
1203 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TCTGATTTCTGTCTCTTCAGGCG
3' ss Score
9.44
Exon sequences
Seq C1 exon
CTGCAGCAGGTGGAGGTGCTGCACCCGCCGCTGCAGGAGGAGCTCAGCCTGCAGGAGCTGCAGCGGCAGCAGGACAGACAGACTACAGCGCCGCATGGGCCGAATACTACAGACAGCAGGCTGCTTATTACGGACAGACAGGACAGACCCCGGGTCAGCCAGGGGCAACACCGCAGGGCCAGCAG
Seq A exon
GTACATTTACCACACACAAAAAGGCTACTCAAAAGATTTCTCTCAGACTGAAGCTTTTAAAATCCGTAAAAGAAACATGATCAGGGTTTCTGCAGTTTTCACAAGCCTTTTAAGACCATTGAATTAAATTTTATACTTGTACAGAGCTAAATGCTAAGGATTTTTTTCCGATATGACTGTTAGAAAATATTTTCACCTGCCCTATCAAAATGATTCATTTAATAATACAATAATAAATTAATAATACATTTGATATTTAAGATGTAAGAAAATATTAAATCACAAACCCTATAACCCCTACCAAGAATAGAGCAAAACCTAGCTGTCAATTACTTTAGTGTACAATAATAATAAAAGTGAGAAATAACAGGAAAATTAAGATGTTAAAAAAAGATGTAAGACCTACACCACAGCATTTTAGTAGATTTAAGACTTTTTAAGGCCTAACATTTAGCTTTTGAGGTGGAGACTTTAAGGCCCTGTGGATGCCCTGATGATCTTTTCATCTGGATGTAGCTTTAGTTGATTTTTAAGTTGATGAAATATTGCTTAACAGTGTAATGACAATGTAGTCATTAATATCAAGCATGGTCACACTTATAGTAATTGTTCAATATTCTGTAGTATAAAATAACTGAAAACATAAAATGTATAATATTTTTTTAAGTTAAATATCACAAGACTTTGCATATTTTCAATGTATCATTTATTTATATTTTAAAAAATGTATTCATTACCAATCTTGAATGTTTAATTTTAGCAATAAAAATAAATATATGAAGAGTTCAGATGCAAAAACCTGCCACATGAAATTGAACATTTTCCTAAGCCTCCTGTTTATGTTCAGTTATTTTACATTAAAGGCAATGAAAAGAAGTTATTTGTCACCATAAAAGTAAAATTACTGAGCCTACATGCAGGACTCGGGATGCTAGTTTAAGAAGAAAATGTCAAATGGCTTTTAGAGGTTTTTGCATCTGAACTCTTCATATAGTGTATTAGTGGGGTAGTTAACTCAAAATGTAAACAAATTACTTTAGAAATTACTAAATTTGGAAACCAGTAGTGGTAAATCCATAATATGAGAATTACCATAGAGGGTAAATGGTTACAGGTGATTTATTTTTATTTTTAAATACTACTTTTTGAAGACATTGGACATAAATGTAATTATTTTAAATGATCTGATTTCTGTCTCTTCAG
Seq C2 exon
GCGCAGTGAACAAACTAAAGCTGAGCTCTTGTCCGTCCTGGTCCTGCCCTCCATCCTCTTGCTGTCCTCTGGGAAAAGGACGTTTGCTCTTCCTCTTCTTTTTATTTGTTTTCTCCCTCTTCCTGTGTCCAGTGGAAAAGCTGCGTGACTCTTCTCTGAAGCCGGATTTCACGTAAAGGCTTCTGCAAACACTCTAGTTTTCCCTCTTTTTTTTTTTTGCTGGATTCATAAACGCTGTCTGATGGACTAAAAATCGAACTCTGCCTTCCCTCCACAATCGCTTCATTCCTCTTCCTCGCGTCCGTGTGACTCACCACCAGGGAAACACAAGGGAATGCTTCTTCTGCTAACTTCCTCACCTGAGCGTGCACTTCCTGTTCTGCATTAACTGTTTTTTTCTTTTAATTTCTTTTGTCTGAGGAAACAGGTATATTTAGAGGAAATCTTCAGGTGTTAATAACTACTGTTTCGAACTCGATGAGTAACCTTCTCTCTTTTTTTTTTTTTTTTTTTAAATGCTTTTTGTTTTTGCTTTTAGTCCTTTTTAATTTGATTTTTGAGCTGGAACATTCCCATTCTTTAACGTGTTCACTTTATACTCCATTTAGTGACGTTTTTTTTAATGTGATTTATTTTTTTTTCTTCCCCCTGATATCAAGTGATGTTTCAGTCTGTGTGCGTGTGTATGTTTCATGTCACGTGTGAATGTATGCCGAGTGTGTTCTGGTACTGAAACTCATGACATCTAGTGTTGCTCCTCACTCTGTGAAATGAGGGTTTTTCTTATGTTTTCTTCTTCCCACCCCTGTTATTGGAAGTCATGATGATGATGTTATAAATATAAAATGTATGCTTTTTTTTTACTGCTTGTTTTTAAAAACGACAATAAACATTACAAAATCCTCATCAGATCACATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(32.4=17.7),PF090055=DUF1897=WD(100=53.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGCTGCTTATTACGGACA
R:
GAAGCGATTGTGGAGGGAAGG
Band lengths:
354-1557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]