DreINT0137941 @ danRer10
Intron Retention
Gene
ENSDARG00000014623 | si:ch211-212d10.1
Description
si:ch211-212d10.1 [Source:ZFIN;Acc:ZDB-GENE-050208-355]
Coordinates
chr22:18505417-18505724:+
Coord C1 exon
chr22:18505417-18505482
Coord A exon
chr22:18505483-18505567
Coord C2 exon
chr22:18505568-18505724
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
CTAAAAATTTGTTGTTTTAGGTT
3' ss Score
9.35
Exon sequences
Seq C1 exon
TGTCAACGATGAGCATCATTTGGCAAACCACTAGTCTGCTGCTACTGCTGCGTTGCTGTGCTCCAG
Seq A exon
GTGACCATCATTTTAATGATTACAGCAGGTTATTTATCAGAATATTCCACTGAATTGTTTGAGCTCTAAAAATTTGTTGTTTTAG
Seq C2 exon
GTTTCTGCATGCGAGATGGGATTGTTGGTGGGAAAGTGTCCATTCCACACAGTCGACCCTACATGGTCTACATTAAGGACTCAAATTCAAAATTAGCATGTGGCGGTTTTTTGATAAGAGAGGATTTTGTGCTCACAGCAGCCCACTGTAAACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014623:ENSDART00000105415:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(27.8=84.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
CTGCTACTGCTGCGTTGCT
R:
GTTTACAGTGGGCTGCTGTGA
Band lengths:
181-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]