DreINT0131793 @ danRer10
Intron Retention
Gene
ENSDARG00000011490 | scube3
Description
signal peptide, CUB domain, EGF-like 3 [Source:ZFIN;Acc:ZDB-GENE-060717-1]
Coordinates
chr23:41441795-41442749:-
Coord C1 exon
chr23:41442633-41442749
Coord A exon
chr23:41441957-41442632
Coord C2 exon
chr23:41441795-41441956
Length
676 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
AATAATATATTGATTTGTAGGCG
3' ss Score
5.74
Exon sequences
Seq C1 exon
AGACTCAGGTTCATCCAGTGAAGCAAACGGCGTCTTTTCGGATCAAGAACGCCAAATGTCACCTGCACCCGAAGCATAAGGGGAGAGCAGAGGACAACGGCAGACAGATCGGCCCAG
Seq A exon
GTCAGAAACACACACATCACCAAATCAAGGGCAACATGGTCCCTGTTGCAGAACGAGGGCTTGGGGCTGTTTAGTGTGGGTATGTCTACGTGTTTTTGTGACATTTCAAGACACAAATCTATATAATGACGTGGGTATGACAGGTATAACAAAAAAGGTGGTGAATCATGAGGACATTACTAATATCATCTCTCAATAAAGCTTATAAAAAATACAGAATGATTTTTTTTCAGAAAGTAAAACTGCAGTTTCTTATGAGGGTTTGTTTTAGGGGTAGGGCAGTAAAAATAAAGTTTGAACAGTATAAAAACAATGGAAACCTATTTAATGTCCACACAATTATGTATATTATACAAACTACTTCTTTTGTGTTCAACAGAGGTTGTAACACGTGAAACGTGAGTAAATGATGACAGAATTTTCATTTTAAAGCGAACTATGACTTCACGTTACAGATGTCAAACTTGGTTCCTGGAGGTTTAGAGCGCTGCACAGTTTAGTTCCAACACTAATTAAACACCTGATCAAACTAATTGAGCCCTTCAGGCTTGTTTGTAACCTGCAGGTAAAGTGTGTTGGAGCAGGGTTGGAACTAAACTGTGCAGGACTGCAGCCTTCCAGAGTTTGACACCCCTGCTTTAAGCTCTCTCTCTGTGAATAATATATTGATTTGTAG
Seq C2 exon
GCGGTCAGCCGTGCAACAACTGCCTGGTCACGTTTGTTAACCTGAAGTGTGACTCCTCTAAGAAGACCAAAGGCGGTCGTCGAGCTCGAAACCCGACAAATAAAGAGGTGACGCGCATTACTCTGGAGCTGGAGGCCGAGGTCAAACCGGGAGACGCAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011490:ENSDART00000102879:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.436
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGACTCAGGTTCATCCAGTGA
R:
GGTTGCGTCTCCCGGTTTG
Band lengths:
278-954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]