DreINT0136692 @ danRer10
Intron Retention
Gene
ENSDARG00000045752 | si:ch211-161n3.4
Description
si:ch211-161n3.4 [Source:ZFIN;Acc:ZDB-GENE-110913-46]
Coordinates
chr4:10952568-10953052:-
Coord C1 exon
chr4:10952750-10953052
Coord A exon
chr4:10952640-10952749
Coord C2 exon
chr4:10952568-10952639
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
ACTGTATCTGATGATTACAGAAA
3' ss Score
4.01
Exon sequences
Seq C1 exon
CGTTTAAAGAGATCAGGTTAACTGAAGGCTGTGAAGGGAATGTGGAGGTTTTCTACAATGGATCCTGGGGAAATGTGTGCTGGAATCAGATGGAAATAGACACAGTGAGTATTATTTGTCAAGAGCTGAACTGTGGAAGATCTGGTGTTTTGTCTGTTTCTACATCAAGACTGAAATCAGCTCCTAACTGGCTGGACAAAGTAACATGTCGATCACATGATTCACATCTTTTGCAATGTCCGTCTTCAATTTGGGGACAAAATGACTGTAATACAGATGAAGTGGCCAAAGTTACCTGCTCAG
Seq A exon
GTAAAATTATAGAATATTGTTCACTACACAATACAGAAATATTGCTTTAATACTTTGAGTATACATAGAAAAAGACACATTGCATATATTACTGTATCTGATGATTACAG
Seq C2 exon
AAAAGGAGAGTCCTGCATCCCCCAGAAGTTATCTTACTATTTCCACATCTCCTCACCAAAGACAATGTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045752:ENSDART00000150478:13
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=0.120
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=93.1)
A:
NA
C2:
NO
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:
TGTGTGCTGGAATCAGATGGA
R:
CTTCTGGGGGATGCAGGACTC
Band lengths:
258-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]