DreINT0148155 @ danRer10
Intron Retention
Gene
ENSDARG00000096975 | si:dkeyp-93a5.3
Description
si:dkeyp-93a5.3 [Source:ZFIN;Acc:ZDB-GENE-131127-100]
Coordinates
chr25:18647246-18647962:-
Coord C1 exon
chr25:18647794-18647962
Coord A exon
chr25:18647694-18647793
Coord C2 exon
chr25:18647246-18647693
Length
100 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGA
5' ss Score
5.11
3' ss Seq
TTTTTCTTTCTTGTACACAGTCA
3' ss Score
8.55
Exon sequences
Seq C1 exon
TATGTGGACGTCCAAACCCCACATTAAATCCTCGCATTGTGGGTGGTGTGAATGCAACTCATGGCGCGTGGCCGTGGATGGTCAGTCTGCAGGGCAGATATGGCCATTTTTGTGGCGGCTCCCTCATCAACAATCAATGGGTGCTGACAGCAGCTCACTGCATTGTTGA
Seq A exon
GTAAGACACCTCAACTATAATCAATGGCCTTATTTGGTTGGTGGAAATGTTCTTTAAGTACCATTTTTGTTACTCTTGTTTTTTTCTTTCTTGTACACAG
Seq C2 exon
TCAAACCCCATCCAGCATAATTGTGTACTTAGGAAAGTGGAGAAGTTATGTAGCTGATGTCAATTCAATCTCCAGAACTATCAGACACATCATTCCCCATCCCTCCTACAGTAACATAACTAAAGATAATGACATCGCTCTGCTGCAGCTGACATCTACAGTCCAATATACTGACTACATTAAACCCATATGTCTAGCAGATGAAAACAGCAACTTCCCTCGTGGCACCAACAGCTGGGTCGCAGGCTGGGGGGATATTGGAGTTTTGGGCACAGGTGGTATAAGAGGCAGAACCACAGTGTCTGTGCCTTTACCTCATCCTGGCATTCTGCAAGAGGCTGAGCTTAAAGTGTACAGTAATGCAGACTGCAATAATATTTGTCATGGACGGATCACCCCCAACATGATTTGTGCTGGTACACGTCCTGGAGGCAAAGCAACCTTTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000096975:ENSDART00000155354:3
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=0.013
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(18.4=77.2)
A:
NA
C2:
PF0008921=Trypsin=FE(62.3=100)
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:
AAATCCTCGCATTGTGGGTGG
R:
AGGAGGGATGGGGAATGATGT
Band lengths:
251-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]