DreINT0156759 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10758799-10759210:+
Coord C1 exon
chr4:10758799-10758992
Coord A exon
chr4:10758993-10759068
Coord C2 exon
chr4:10759069-10759210
Length
76 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGC
5' ss Score
3.69
3' ss Seq
TAATGTGTTTTGTGTTCCAGGGT
3' ss Score
9.86
Exon sequences
Seq C1 exon
TGGCCAATATGTGCAAGTACTGGAACGGCGGCTGTTCAAAGGATGCGAAATGCAGTCAGAAGGGGGAGAAAGTGAGCTGCGCGTGTCTCCAAGGGTTTTCTGGCGATGGTTTTGTTTGCACACCCATCGACCCCTGTGTTGATGGTGAAAATGGAGGGTGTCATGAACACGCCACCTGCACCATGACTGGACCT
Seq A exon
GTAAGCAAGACATTCATATTTAATATAATGCAAATTCTGGGTCCATAAAGCGTATGTAATGTGTTTTGTGTTCCAG
Seq C2 exon
GGTAAGAGGAAATGTGAGTGTAAAGATAGCTACGTTGGTGATGGGATCGATTGTGAAGCAAAGGTGTTGCCTGTCAATCGCTGTCTAGTAGATAACGGACAGTGCCATTCAGATGCTCAGTGCACAGACCTGCACCATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:59
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:
PF129472=EGF_3=WD(100=55.4),PF129472=EGF_3=PU(50.0=29.2)
A:
NA
C2:
PF129472=EGF_3=PD(44.7=35.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGATGGTTTTGTTTGCACA
R:
AGACAGCGATTGACAGGCAAC
Band lengths:
179-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]