DreINT0156695 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10289878-10290194:-
Coord C1 exon
chr22:10290090-10290194
Coord A exon
chr22:10290013-10290089
Coord C2 exon
chr22:10289878-10290012
Length
77 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AAATCATCTCTTTCCAACAGAGC
3' ss Score
8.53
Exon sequences
Seq C1 exon
CTTTACAACTTGGAAAACAGCATCCCAACTCGAGATTACACCATTTTGATTCCATATGACAGTGCTGTACAGGAGTACCTAATTAAAACGAACGCTACACAACTG
Seq A exon
GTGAGTAGAATGTTTTTGCGCGACAATAATTGCATTATTATACGTTATCAATTGACAAAATCATCTCTTTCCAACAG
Seq C2 exon
AGCAAGGAGATTGTAAAATATCACGTGATTCTAAGCGAGCAGCTCTTTCCTGAACACTTGAGCGACAGACTTTTCAAAAACACGTTTTTAGGAAACGGGACTCAGATCATGTTCTTCGTGGACATCGAAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:33
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:
PF0246917=Fasciclin=FE(28.3=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(36.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTGGAAAACAGCATCCCAACT
R:
TCTGTCGCTCAAGTGTTCAGG
Band lengths:
167-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]