DreINT0144194 @ danRer10
Intron Retention
Gene
ENSDARG00000096083 | si:dkey-21h14.8
Description
si:dkey-21h14.8 [Source:ZFIN;Acc:ZDB-GENE-110913-34]
Coordinates
chr4:11064037-11064804:-
Coord C1 exon
chr4:11064496-11064804
Coord A exon
chr4:11064343-11064495
Coord C2 exon
chr4:11064037-11064342
Length
153 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TACATGTATATTTCCTGTAGATT
3' ss Score
7.44
Exon sequences
Seq C1 exon
CAAACGTGAGGCTGGTTGGTGGTAAGAATTCCTGTGCTGGTAGATTAGAGGTTTATTATAATGGACGGTGGGGAACTGTGTGTGATGATTATTGGAGTTTGACAAACACTGCAGTGGTGTGCAGAGAACTGAACTGTACCCATACTTCAGATACAATGCGTGTTGCTCACTTCGGACCTGGATCAGGAAAAATCTGGATGGATGATGTGAGGTGTAGTGGATCTGAATCCTCAATATTTAAATGCCTACGAAGAAAGATTGGTGTAAATGACTGTAAACATATTGAGGATATTGGTGTTATCTGTTCAG
Seq A exon
GTAAGCCACATAAAAATTACAGTTGCTCAGTTACTCAGAAGTGTGTGTTGGCAATTAAAACATTGTAATAGCATTTAAGTTATTAACAGTATAGAACTTGTTGAATATTTTAAGGCATTAATTTATAATGATTTACATGTATATTTCCTGTAG
Seq C2 exon
ATTTAGGCATCAGACTGGTTGGAAATTCTCGCTGTTCAGGGAGATTAGAGGTGCCTTCTGGGAACACAAGGTACACAGTGTGTGATGCTGCCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGAACAGTTGCTGAGAGCTGCTGCTTTTGACAAAGGAGACACTCAGATGTGGACACAAGAGATTCACTGCAGAGGAAATGAGTATCAATTTGCTTTCTGTCCTGTATCATCTTCTCACAGCAATTGCTCCTCTAACAGTAATGTTGGACTTGTGTGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000096083:ENSDART00000150760:2
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:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
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:
CAATGCGTGTTGCTCACTTCG
R:
GGCAGCATCACACACTGTGTA
Band lengths:
248-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]