DreINT0131790 @ danRer10
Intron Retention
Gene
ENSDARG00000011490 | scube3
Description
signal peptide, CUB domain, EGF-like 3 [Source:ZFIN;Acc:ZDB-GENE-060717-1]
Coordinates
chr23:41449776-41450619:-
Coord C1 exon
chr23:41450497-41450619
Coord A exon
chr23:41449893-41450496
Coord C2 exon
chr23:41449776-41449892
Length
604 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
ACTCAATCTTTTTTCTGCAGAGC
3' ss Score
8.53
Exon sequences
Seq C1 exon
ATATCGACGAGTGCAGCATTAATCAGGGTGGCTGTAAATCGGGCTGTCTTAACACGCTGGGCAGTTATGAATGTACCTGTCCTCCTGGATACAAACTGCACTGGAACAAGAAGGACTGTGTGG
Seq A exon
GTATGTGGACAGCAGCGCCACCTACAGCACTTTCACACACATACATTCAATTATTGGCCCTCCTGTAAAATTATTGAATGCTTTTTTTTAAATATTTCCCATTTTAATAATTCAATAATAATTTATTAGTTTTAATAACTCAAATATTTTGATGGCAGTAATAGCATTTTTTTAGTTATTTTGCAATATACTAGTTGTGAGGTTAAAGTGGAATTTAAAGACTTAGTTAACTAGGCAAGTTAGGGTAGTTAGGCAGGTCATTGTATAACAGTGGTTTGCTCTGTAGACAATCAGGGTAAAAATGTTTAAGGGGGCTAATAATATTGACCTTAAAATGGTTTAAAAATTAAAAACTGCTTTCATTCTAGCCGAAATAAAACAAATAAGACATTCTCCAGAAGAAAAAATATTTTAGAAAAAAATTCCCCTCTGTTAAACATAATTTGGGAAATATTTTTTAAAAATAATGCAAATTTCACAGAAGGCCTATTAACTTTGCCTTCAACTGTACATTGTATATGTCAGAATGTTATCAGATGCTGGCGCTCTGGTCAAAAACTAATTGTGCTGCATATTTTAACACAACTCAATCTTTTTTCTGCAG
Seq C2 exon
AGCTCATAAAATGTGCCTCCAATTTGGTGGCCCCCAAAGCCACCCTGGCCTGCAGTAAAACGGGCAAGAAAGAGAGCTGTTCCCTCACGTGTGCATCCAAAGCACATTATCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011490:ENSDART00000102879:6
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:
PF146701=FXa_inhibition=WD(100=85.7)
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:
ATCGACGAGTGCAGCATTAATCA
R:
CTGACAGATAATGTGCTTTGGATGC
Band lengths:
238-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]