DreINT0156756 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10757197-10758098:+
Coord C1 exon
chr4:10757197-10757346
Coord A exon
chr4:10757347-10757993
Coord C2 exon
chr4:10757994-10758098
Length
647 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TATTGTTTCCTCCTCCTAAGCCT
3' ss Score
4.47
Exon sequences
Seq C1 exon
CATGCCCTGGAGGTCCACAATCTCCTTGCAGCAACCATGGAAAATGTGATGAGGATCATTTAGGCAATGGCACCTGTACTTGTGACACTGGATTTACAGGTGTAGCCTGCGAGTCGTGTTTGGATGGCCATTTTGGACCAGATTGCAACG
Seq A exon
GTGAGTTTCTTTTCAATGCAGTTCTGCACACCGTCACAACAAACAATCAGTTTTGCAGTTCATTTAACTCAATGGCAGCAATTGTTTGTATGAAACAGCTTCAGTATTTAGGCTTTTCAGCCACACATTATCATAAATTCTGTGCTTATCATAGAATCACTGGAATAAAAGTTTATATATTGCATCCTAATACTGCCTATAGTGCCTGCAGCAGTGATCAAAATAGTAAACACTTTAGGGTTCAACTATTGCTTCATTTATTACTTTAAAAGTAACTTTTAAAACTGTATTTGTCACTGAATCATTGAAATTCATTCACAAATGCAGAAATATTCTTTTTATTGCTGAACCTTTTGATTATTTGCATTTACAAATGTTTATCTATTGCGTTTGTTTTCTTTATAATGTTATTTTATTATTGTTATATTTGTATTATTTGTGTTAACAATGCTTTTGATGCTAGAATTTATAATTGTACTACGTTTAATTCAAGAAAATATCATCTAATTTAGTTTTCTGCTGATAGATTGGAACAGTTGATGTATTGTGTATCTCTTTTTCTAATACGCATCAATAACTATAGAGTTAAACTACAAATGCAGATATGATTTGTTTAATGAACTCCTCTATTGTTTCCTCCTCCTAAG
Seq C2 exon
CCTGCAATTGCACAGAACATGGGTCATGTGATGAGGGTCTTCAAGGTACCGGGTCATGTTTTTGTGAAGAGGGCTGGACTGGTCCGCAATGTGAAAACAAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:56
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:
PF079748=EGF_2=WD(100=70.6),PF079748=EGF_2=PU(3.1=2.0)
A:
NA
C2:
PF079748=EGF_2=PD(93.8=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCCCTGGAGGTCCACAAT
R:
TAATTTGTTTTCACATTGCGGACCA
Band lengths:
254-901
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]