DreINT0146789 @ danRer10
Intron Retention
Gene
ENSDARG00000071381 | si:dkey-78l4.11
Description
si:dkey-78l4.11 [Source:ZFIN;Acc:ZDB-GENE-060503-269]
Coordinates
chr22:19479799-19480165:-
Coord C1 exon
chr22:19480021-19480165
Coord A exon
chr22:19479932-19480020
Coord C2 exon
chr22:19479799-19479931
Length
89 bp
Sequences
Splice sites
5' ss Seq
CCAGTGTGT
5' ss Score
2.37
3' ss Seq
GATTTTGTCTTTTTCAACAGAGG
3' ss Score
8.93
Exon sequences
Seq C1 exon
CTTATGTGCATATAACGGACGGCAGGGAGGCAAAACCTCACTCCAGACCTTACATGGTTTCTGTTCAGAAGAAATGTCAACATATCTGTGGTGGATTTCTGATATCTGAACAGTTTGTCTTGACTGCTGCACATTGCTGGAACCA
Seq A exon
GTGTGTGCTTTAGTTTGAACTTTAATGTGTGTCATTTGACCCCAAGAAACGAACAAGCACATGTCTAATGATTTTGTCTTTTTCAACAG
Seq C2 exon
AGGTGACACTCTGAAAATTGTGGTTGGTGCCCATAACTTGGCTGACAGTAAGAGTTTGATCCATTTTAAAGTGAAATCCTACATCAAGCATCCAGGCTACGCATTGTTTCAAAATGACATCATGCTTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071381:ENSDART00000105489:2
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:
PF0008921=Trypsin=PU(19.8=87.8)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCATATAACGGACGGCAG
R:
GGCACCAACCACAATTTTCAGA
Band lengths:
172-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]