DreINT0136709 @ danRer10
Intron Retention
Gene
ENSDARG00000095981 | si:ch211-161n3.5
Description
si:ch211-161n3.5 [Source:ZFIN;Acc:ZDB-GENE-110913-81]
Coordinates
chr4:10931729-10932446:-
Coord C1 exon
chr4:10932154-10932446
Coord A exon
chr4:10932044-10932153
Coord C2 exon
chr4:10931729-10932043
Length
110 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAAG
5' ss Score
-1.79
3' ss Seq
TTTCAATAACCTCCACACAGGTT
3' ss Score
6.53
Exon sequences
Seq C1 exon
ACTCATAAATGGACCTCATCTGTGTGCTGGGAGATTAGAGATACAAAACATAAAGACGTGGATGTCAGTGTGTGATGTTGGCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGTTCCTGTACAGGTGCTGAGAGCTGCTGCTTTTGGTAAAGTAGAATCTCAGATGTGGACACAAGAGATTCACTGCAGAGGAAATGAGTCTCACCTGGTTTTCTGTCCTGCGTTCAAGTCTTCACACTGTACCCTTGAAAATGCTGTAGGAGTAATATGCTCTG
Seq A exon
GTTAAGTAACATTTGACTGCTCTTTACATAAATATACATATAGTTAGATACATATAAACTGATTAATTCTCCTAAAGTGACCATAAACTGTTTCAATAACCTCCACACAG
Seq C2 exon
GTTACACTGATCTCCGACTGGTAAATGGTTCAGACTCTTGTTCTGGAAGAGTGGAGCTTCAGTATCTCAGAAAATGGGGCACAGTATGTGATGCATGCTGGGATATGAGAGCTGCCAATGTCCTCTGTAAACAGCTGAATTGTGGGATTCCTGTGTCCGTTGTGGGATCAGACTGGTTTGGAGAGGGAAGTGGTGAAATCTGGGCTGATGTGTTTGATTGTGACGGGAATGAAACAAAACTCTCAGAATGTTCAATCTCTTCATGGAGTCGAGCTGAACGCTCTCATAGACGAGATGTTGGAGTCATCTGCTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000095981:ENSDART00000150247:2
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:
PF0053013=SRCR=WD(100=98.7)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
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:
CCTGGTTTTCTGTCCTGCGTT
R:
CTGATCCCACAACGGACACAG
Band lengths:
242-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]