DreINT0156760 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10759069-10759806:+
Coord C1 exon
chr4:10759069-10759210
Coord A exon
chr4:10759211-10759672
Coord C2 exon
chr4:10759673-10759806
Length
462 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
ATCTCTTTCTCATCATTCAGATA
3' ss Score
9.67
Exon sequences
Seq C1 exon
GGTAAGAGGAAATGTGAGTGTAAAGATAGCTACGTTGGTGATGGGATCGATTGTGAAGCAAAGGTGTTGCCTGTCAATCGCTGTCTAGTAGATAACGGACAGTGCCATTCAGATGCTCAGTGCACAGACCTGCACCATGAGG
Seq A exon
GTATGTATCCTTCATATGCAGGAGTATTGTGATTCTTTTTAATTTACAATGAAGCAAATTATTAGATATTATAATTATTGTTATATTATTAGAAGGATTTCTGAATGTATTTAAATTGTCCATCACTTAAAACGACTACTTAAATTGGAATAATATGAAATTTGATTAATATTTTAGTGCAGTTTTTAATAATGACTGAAATATTTACCGTCAACATTCTTTTGTGCCATGATTTGTGAATATAATTAAAGTCTTTAAGTTTATTTAAGTTATTTTAAGATGTTAAAGTTATTCATTTATTAAAATTAAACAAATCTATTTGTTATTATTGCAAATAAGCCAAATTATTAGCCCTATGTTATATTATGCTAATGGTTTTTAACCCTGTGGTGCCCTTAAAATCTCATCTGTGCAGTCAGCTTAATTGATTTAAAAAGAAAGCATCTCTTTCTCATCATTCAG
Seq C2 exon
ATAAAACATTAGGGGTTTTCCATTATCGCTCCACCAATGGAACATACAAGCTCAACTACACCATGGCACAGGAGGCCTGCAAGGAGGCGGGAAGCACCATCGCTACCTACATGCAGCTGTCCTATGCGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:60
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=PD(44.7=35.4)
A:
NA
C2:
PF0019312=Xlink=PU(43.6=91.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAAGAGGAAATGTGAGTGTAAAGA
R:
CGCATAGGACAGCTGCATGTA
Band lengths:
270-732
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]