DreINT0136714 @ danRer10
Intron Retention
Gene
ENSDARG00000095981 | si:ch211-161n3.5
Description
si:ch211-161n3.5 [Source:ZFIN;Acc:ZDB-GENE-110913-81]
Coordinates
chr4:10929609-10930231:-
Coord C1 exon
chr4:10929917-10930231
Coord A exon
chr4:10929828-10929916
Coord C2 exon
chr4:10929609-10929827
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
TTTTGAATCTGTTTTAATAGACT
3' ss Score
6.01
Exon sequences
Seq C1 exon
CACATGTTCCTCTCAGACTGCGTGGAGGGGACGGCCGGTGCTCTGGGAGGCTGGAGGTGTATCATAACGCTGTGTGGGGCTCAGTCTGTGATAATCTCTGGGACATCAGTGATGCTCAGGTGGTCTGCAGGCAGCTGGGTTGTGGAGCAGCACTAAGGGCTGATGGGAATTCAACCTTTGGTGCTGGTAAAGGTGTTGTGTGGCTGAACGGAGTCCATTGCAGAGGGAATGAGCTTCACCTGTGGGACTGTCCTTTCTCCCTGAAGAAGCACAATGATTGCTCCCATGAAAAGCATGCTGGACTCACCTGTGCAG
Seq A exon
GTCACTGACAGATTTTTTGATTATTTGAATTCTAGTAATTTTATTTATTTTAATTAGTAATTTGCATGATTTTGAATCTGTTTTAATAG
Seq C2 exon
ACTTGTCAGGTTTGTCAGTGTCCACTACTCTTTCCACATCAGCATCATCTTCTGCTGCAGTTTCTCAGACAGTGAGCTCAACATCAGTCTCTCCTCCACAAACTGGTCCAGAAACTCTCCCAGTCCCCCCAGTTCTGGTGATTGTACTGGGAGTTGTGCTCTTACTGCTCTTAGTGCCGCTGCTTATACTGATTCAGCAGAACAGAGTGATGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000095981:ENSDART00000150247:8
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=0.216
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5),PF151021=TMEM154=PU(12.1=14.2)
A:
NA
C2:
PF151021=TMEM154=FE(58.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
GCAGAGGGAATGAGCTTCACC
R:
CACTGTCTGAGAAACTGCAGCA
Band lengths:
170-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]