DreINT0136700 @ danRer10
Intron Retention
Gene
ENSDARG00000045752 | si:ch211-161n3.4
Description
si:ch211-161n3.4 [Source:ZFIN;Acc:ZDB-GENE-110913-46]
Coordinates
chr4:10955742-10956461:-
Coord C1 exon
chr4:10956153-10956461
Coord A exon
chr4:10956057-10956152
Coord C2 exon
chr4:10955742-10956056
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGAA
5' ss Score
1.26
3' ss Seq
TTTCTTTCTTTATTATCCAGAAA
3' ss Score
8.53
Exon sequences
Seq C1 exon
AAGTGAAACTCTTTGGAGATTCTCACTGCTCTGGGAGGCTGGAGATTCTTCATAATCAGACGTGGATGTCAGTGTGTGACGCTGCCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGTACAGGTGCTGAGAATTGCTGCTTTTGACAAAGGAGACGCTCAGATGTGGACACAAGAGATTCACTGCAGAGGAGATGAGTCTCAGATTCACCTCTGTCCATTTACATCAACATCATCATCACATGAAAACAACTGCACTCATGACAACACAGAACTTGTTTGTGCAG
Seq A exon
GTTGAAACTACTTTTAAATTAATGTTCAAATCGGAATCACTTACTAGTTAATTCTTTCTGTCACCTCATCTTTCATTTTCTTTCTTTATTATCCAG
Seq C2 exon
AAAGTGTAAATGTGAGACTTATAAATAGTACCAGTCGCTGTGCTGGTCGAGTGGAAGTTTTTCATAGAGGTCAGTGGGGAACGGTGTGTGATGCTGCCTGGGATCTTAAAGATGCTGCAGTGGTGTGTAGAGAACTGGGATGTGGAGAACCTGTAGATGCTCTGAGTGGTGCTCATTTTGGACAAGGAACAGGACCAATCTGGATGGGTGTTGTGTTATGCACTGGATCAGAGTCTACCCTGAAGGCCTGTGGGTCATGGGGATGGGAGAAACATAACTGTGATCATAGTGGTGATGCTGGAATCATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045752:ENSDART00000150478:5
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=96.2)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACGCTCAGATGTGGACAC
R:
CCAGCACAGCGACTGGTACTA
Band lengths:
181-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]