DreINT0136689 @ danRer10
Intron Retention
Gene
ENSDARG00000092989 | si:ch211-161n3.3
Description
si:ch211-161n3.3 [Source:ZFIN;Acc:ZDB-GENE-041210-102]
Coordinates
chr4:10966583-10967514:-
Coord C1 exon
chr4:10967200-10967514
Coord A exon
chr4:10966898-10967199
Coord C2 exon
chr4:10966583-10966897
Length
302 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAAT
5' ss Score
4.06
3' ss Seq
ATTTAATTTTATATGAACAGGTC
3' ss Score
6.75
Exon sequences
Seq C1 exon
AAAGTTTAAAAGTGAGATTGGTTGATGGGAACAGTCCCTGTGCTGGTAGAGTGGAGGTTCTTCATCGAGGTCAGTGGGGAACTGTGTGTGACATGTTCTGGGATTTGGCTGATGCTGCAGTTGTGTGTAGAGAACTGGACTGTGGAGAACCTGTAGATGTTTTGGGTGATGCTTATTTTGGACCAGGATCTGGACCAACCTTGATGTCAGTTCCGATGTGTATTGGATCAGAGTCAACACTGAAGAACTGTGGGTCATGGGCATGGGGTAAACCTGTGTGTGCTCACAATGAAGATGCTGGAGTCATTTGTTCAG
Seq A exon
GTCAATAAGTTCACTAAGCAGTCATGTCACATTTTCACAGTAGACTGTTGTTTGTGATTATTACAAAAACACACATCCATTATCTAGCCTAATTAAGCCTAATTATCTAGCCTTATTATTTACAAGAGAGAAAACATCTTATATGTTGTATCAACATGTAATATGTATTTTCCACTAGAGTGGAAAGTTAACCTGATATGATGATTAATGTGTCCTTTTTGTACAAATTGGCATAACTTAACAAAATCTTAAAGAATCTAACGTTTTTGAACATTAATTTTTATTTAATTTTATATGAACAG
Seq C2 exon
GTCATAAACATTCCAGGCTCGTCAATGGATCTCACCTGTGCTCTGGGAGGTTAGAGGTGGCTCATGGGAACACTTGGATGTCAGTGTGTGATGCTGCCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGTACAGGTGCTGAGAGCTGCTGCTTTTGACAAAGGAGACGCTCAGATGTGGACACAAGCGATTCACTGCACAGGAGACGAGTCTTATATATTTTTCTGTCCAACATCATCTTCTCTCAAAGACAGTTGTACCAATGGAAACATTGTCGGATTAATCTGTTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000092989:ENSDART00000136440:8
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:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCTGGTAGAGTGGAGGT
R:
ATGAGCCACCTCTAACCTCCC
Band lengths:
343-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]