DreINT0156743 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10748210-10748597:+
Coord C1 exon
chr4:10748210-10748305
Coord A exon
chr4:10748306-10748401
Coord C2 exon
chr4:10748402-10748597
Length
96 bp
Sequences
Splice sites
5' ss Seq
ATTGTATGT
5' ss Score
4.34
3' ss Seq
ATATCAATTTCTTTTTAAAGGAA
3' ss Score
8.34
Exon sequences
Seq C1 exon
ATGAGCAGAAAGAGAAGATGCATGTACAGCCGGGTGTTGCATGGAGACACACTGCTGACCATTGGATGTAAATTTTCTTGTGAGAAAATGACCATT
Seq A exon
GTATGTACATTATACAGTCATTGGGTTTTCACAGCCTTCTGGAATTCAGCATGGAAAATGTTCATGTTTAAGTAAAATATCAATTTCTTTTTAAAG
Seq C2 exon
GAAAGAATATGTTGTTCGGGTCATTATGGTATCAACTGTGAGAAGTGCCCGGGATCCGAAGATCAGTCTTGCTTTGGCAACGGCATATGTAAAGACGGCATCAATGGCACAGGGGTCTGTCTGTGCAACCAGGGCTTTAACGGCACCGCATGTGAATCCTGCCAGCCTGGCAAATATGGAATTCATTGTGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:37
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:
NO
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:
TGGAGACACACTGCTGACCAT
R:
CAGACCCCTGTGCCATTGATG
Band lengths:
174-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]