DreINT0131769 @ danRer10
Intron Retention
Gene
ENSDARG00000037362 | scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:ZFIN;Acc:ZDB-GENE-050302-80]
Coordinates
chr7:28298036-28299864:-
Coord C1 exon
chr7:28299785-28299864
Coord A exon
chr7:28299022-28299784
Coord C2 exon
chr7:28298036-28299021
Length
763 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TTTTCATGAACCTTTTTTAGGAC
3' ss Score
9.04
Exon sequences
Seq C1 exon
AGGACTACCAGGAGCTCATTGAGGACATAGTTAGGGATGGAAGATTATACGCCTCTGAGAATCATCAGGAAATTCTTAAG
Seq A exon
GTATAGTGATGAGCAACTTCAAATCTTAAACAAGTCTTGTTATTGCTTGATTTTAAAGGGGTGGTTGACCCAAAATCATTATTACTATCAAGTGTTTCCAGATAATTATGTTTATTTCTTCTGTTTAACAGAAAAAATGATATTCTAAAGAAACTGAAAACCTGTAACCATTGACTTGCATACACTGTAAAACCCCAAAAGTTAAGGTAACTCAAACCATTTGAAGAAACCGATTGCAGCAAACCATTTAAGTTCAAAAATGAATCCTTATGGGTACGGTGAACTTACTCCATTTGAGTAAACACAGCAATTTGAGTACTGTAAAACCCAATAAGTTAATGCGACTCAAACCGTTTGAGAAGCTGATTGCTACAAACCATTTGAGTGGGAAAAAAAAGAATCTCTACAAGTACTGTTAAATTAATCCATTTGAGTTGTTGTGTAGGTATTTGATTAACTCATTGCCTTCAAAACTCTTTTCAAATGAGTAGAATTACTTTCAGTAAATTGAGTTTACATTTCTCAAAAGGCTTTCTTTTTTAACAGATGAGAAAAACTCTTAAAGATTTAAAAAGGGTTGAGTAAACGATTACAGAATTAAATTTTTGGGTGAACTATCCCTTTAAATAGCTCACTTAAAGCAAGAAATAATTTCTAGAAATGTGCCTTTGCAGTAAAAAAGGCAATAGTGCCCCCTTGTGGACGATGTAAATATATGCTTGGCTGAAAGTTAATTCATGTTCTTTTCATGAACCTTTTTTAG
Seq C2 exon
GACAAAAAGCTAATGAGGGCCCTGTTTGATGTTCTGGCTCACCCACAGAATTTCTTCAACTACACGGCACAAGAGTCCAGAGAAATGTTTCCCAAATCTTTTATCAGATTCCTCCGCTCCAAAGTTCTAAGATTCCTGCGCCCCTGAATTTTGTCAAATAATCTTTTATGGAATGGGTATTTGGCTCTCCAGCTAAATTTTAAATGACTGGAACAGATATTGTTGAGCGTTCTTGTCTGCATACTCGCAGATTCAAGACAACTTCTGGGACCTGACGAGATGAGAAACTGTCCTGAATTTATGTCATTGGAACTTTTTCTTCTGGAGAAAATGAACTGTTTTTTTTACAGTGAATGATTGCTGACCTTCTAAAAAGAACAGCCACCTTTAAAGAAAAAGATTCTTCTTGTTTCATTCATTTATTGGCCAGAAGTGACTGAGTATCAAAAACATGCTAATTACAGCTGGAAAAAAAGAGCAACTACATTGCTTGTTATATATATATATATATATATTATTGGTCACTTCATAAAAATGTGTGAAAAGTATGTTGACCTAATTATTATAAAACTTCACAGCACTACTGAGGACGTAGTGGAAGTTAAAGCAGTTAAAGTCATTTTGGCAAGTTTGAATGTGTTGTACATTGTGTAAAAAAAGTTAGCATAAGCTCTCATGTTACTATTTTGTGTTGCTTTTTACTATATTGTAGCCTTTTTATACATGACATATGTGTATTATATTCAGTAATACTGGTTAGAGATTATGGTCATTTGATATATCGGTTATCATTTACTTATCATTCACTTTGTCCATTCCCCAAACATTTTTTATTATTAAGAGGCTCTTGATGTAGGATTGTTTACCCATTATTGACATGCAGAGTAAATTAAATGTTTATATTTTTATGGCTGTACATCTAACATGTAAATAAAGAAATACAATTGAATGTGCTTTTGTTGTATTGGAAGCAATGCAGAAGTAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037362:ENSDART00000054366:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
ACCAGGAGCTCATTGAGGACA
R:
TCGTCAGGTCCCAGAAGTTGT
Band lengths:
352-1115
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]