DreINT0156755 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10756502-10757346:+
Coord C1 exon
chr4:10756502-10756625
Coord A exon
chr4:10756626-10757196
Coord C2 exon
chr4:10757197-10757346
Length
571 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
AATATTACCCTGTTCTCCAGCAT
3' ss Score
4.58
Exon sequences
Seq C1 exon
GGAGAACAAGAGTGTGTCCTTCCAGATTCTGTTATATCAAGGGGATCAAAATGTCAATCAACATGTAAAGTGGTCGTGTGGAAGCCCAAGTGCTGTTCAGGGTACTACGGCAGGGACTGTCTTG
Seq A exon
GTAAGCAGTGTCTCAATATACTAATATGTGTCATTTCCTTGGAGCTGTAATGGATTTGGAGCTCTGAGATCAATTCTGACAATGTTTTACCAGAGAATGCCTTAGACCAGTGGTTCTCAAACGTTTGTCATCAAGTACCACCTCAGAAAAAAGTTGTCTTTGCAAGAACCACCGTAATGAGCAGTATTGAAATACAGTCGCGTATTAGGTCCAGTAAAGCAGCTAAAGTGTATGCATATCAGTTACTATTATTAAAAACATTTCAATTAAAATGTGCTTCAAAAAGTTCAAAATGGTAGGCTATTGTTTTTAAAAAGTAAAGAAAAAGAGAAAAAACTCCTGGTTTATCAGCACCTGGAAATGTTGCCCAGACCTCATAAATATAGGCTTTATGCCATCATATTCATATATAAATCTTTTTAATAATTTATTTAAGTACATGTAGCATGTACATATGACATATTTGATTCATCCACATATCACTAGAAGGAAGCCACTGATCCACAGTTTGAGAACCAGTGCCTTAGACATAGACAAGTTGCCAGCTGACAAATATTACCCTGTTCTCCAG
Seq C2 exon
CATGCCCTGGAGGTCCACAATCTCCTTGCAGCAACCATGGAAAATGTGATGAGGATCATTTAGGCAATGGCACCTGTACTTGTGACACTGGATTTACAGGTGTAGCCTGCGAGTCGTGTTTGGATGGCCATTTTGGACCAGATTGCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:55
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:
PF079748=EGF_2=WD(100=70.6),PF079748=EGF_2=PU(3.1=2.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACAAGAGTGTGTCCTTCC
R:
GCAATCTGGTCCAAAATGGCC
Band lengths:
270-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]