DreINT0139666 @ danRer10
Intron Retention
Gene
ENSDARG00000077596 | si:ch211-269m17.1
Description
si:ch211-269m17.1 [Source:ZFIN;Acc:ZDB-GENE-091204-154]
Coordinates
chr10:17953748-17954196:+
Coord C1 exon
chr10:17953748-17953826
Coord A exon
chr10:17953827-17953993
Coord C2 exon
chr10:17953994-17954196
Length
167 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTTT
5' ss Score
2.28
3' ss Seq
TTCACCTACTTTCTGCTCAGAGT
3' ss Score
7.69
Exon sequences
Seq C1 exon
GATAATGTGAACCTGCTGCTCACCGAAGAAGAGATGTACAGTCTGATGGAAACCTTCAAGCAGTGCAAGATCATTCCAG
Seq A exon
GTGTTTCTCTCAGTGCTTTTTTTTAAACAGAGATGTGGTTTAAATATGTGCCTTTAGGAAGCTAATTAAAGGTTCTCTAATTTATCACATCATTGATGTAATTAGGCCTGACCTGTTTTCATTGATTGATGATGCGGTAACTTCCCTTTCACCTACTTTCTGCTCAG
Seq C2 exon
AGTCGTGTCTGGTGTCAGATGAACTCCTGCAGTACAGGCACTTTGTGACCAAGCAACTCTTTGAAAGAGACTTGACCGATGAGGAGGAAGAGGAGGTTCTGGCCCAGTTTGCAGCTCTGGATCCTGAAAAGAAGGGTCAGATTGAGTGGTCTGACTTTCTCTACCATGAGACACTTTCAGTGCTGCAGAAATTTCGGACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077596:ENSDART00000145936:4
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:
PF0062824=PHD=PD(3.3=7.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTGAACCTGCTGCTCACC
R:
TGGTAGAGAAAGTCAGACCACTCA
Band lengths:
242-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]