DreINT0156723 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10261939-10263257:-
Coord C1 exon
chr22:10263113-10263257
Coord A exon
chr22:10262073-10263112
Coord C2 exon
chr22:10261939-10262072
Length
1040 bp
Sequences
Splice sites
5' ss Seq
ACAGTACTC
5' ss Score
-4.76
3' ss Seq
CTTTTGTTCTTCTGTTTCAGCGA
3' ss Score
11.61
Exon sequences
Seq C1 exon
AACGAGCGGCGCTGTCAGTGTCTCGATGGCTATGTGGGAAATGGAGTCCAGTGTTTGGAGAAAGTGGTTCCTCCTGTTGATCGATGCCTGGAGGATAACGGCGGCTGCGACCCAAAGGCGATATGCAGAGACCTTCATTTCCACA
Seq A exon
GTACTCACTTGCTGATATAATTAACTCTTTAATTATGCCCTAATATTATAAGCATTAATAGCAAGTCACCACAAGAAAATTGGGAAAACAAATAACTAAAACATTTTGACTCAGTTGCTTGATTGGACTGACAATTGGAACCATTTTTATATTACAATTAATTTTTTTAACATGGAAAAAAATGTGCATGATAAAAAATGCTGGGTTATTTCAACCCAATTCTGGGAATAATCTGAACTAAACCAACTGCTGGACTTATTTTTGAAATTAAACTAATAAGATCAAAATGAATCCAATGTTTTTGCCAGTACTGGGATGCGACTCTGCTGTGTAAAACATATACCAGAGTAGTTGCCGCTTCATCCTGCTGTGGTGATCCCTGATAAATTGAAGGAAAATTAATAAATGAATGAATGATTAATCCAATGTTTGATTTAGTCCATATTTTACCCAATTTGGGTTTAATTAACCCAGCATTTATTAGAGTGTGGCATTATCAAAATCATTATATTTTATTCATTCATTCATTTGCCCTCAGCTTAGTCTCTTAATTCATCAGGTGTCGCCACAGCGGAATGAACCGCCAACTTATCCAGCATATGTTTTACAAAACGGAACACCCATGCAAACACGGAGAAAACATGCAAACTCCACACAGAAATGGCAACTGGGATTCGAACCAGCGACCTTCTTGCTGTGAGGCAACAGTGCTACCACTGAGCCACCGTGTTGCCTTATTATACAGTAGTTTGGATAGATTTCCAAAACTCAAACATAGATGGGATATTTTTCTTTTGTTGACATTTTTTTTCCTTATTGTGTCTTTCCTTAAAAACATGTTCACAATGATTTAGAAATAATATATACCTTTACCTTTAATTGACAGATAAAATGTGGCAAAATAAAAACTTCAAATTTGACTCTGGATGTTTTATTTCCCTAAAATTTTTATTTTTAAATCCCAAAAATCAGAATCAACATGAATGTTTTCCCTGTAGTGCCTTGCTGTAACAATAAAGGCTTTTGTTCTTCTGTTTCAG
Seq C2 exon
CGAAAACTGCAGGTGTTTTCCATCTGCGCTCACCTGAGGGAAAGTATAAAATGAACTTCACGCAAGCAAAGCAGGCTTGTGAAGCAGAGGGAGCCAATCTTGCCACGTTTTCCCAGCTCTCTGATGCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:60
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=34.7),PF129472=EGF_3=WD(100=36.7)
A:
NA
C2:
PF0019312=Xlink=PU(43.6=91.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGTCAGTGTCTCGATGG
R:
CTGTTGGGCATCAGAGAGCTG
Band lengths:
270-1310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]