HsaINT0146208 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9041047-9043502:-
Coord C1 exon
chr11:9043423-9043502
Coord A exon
chr11:9042745-9043422
Coord C2 exon
chr11:9041047-9042744
Length
678 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AAAAATTCTGTTCTTTTTAGGAT
3' ss Score
10.05
Exon sequences
Seq C1 exon
AGGACTACCAGGAACTCATTGAAGACATAGTTCGAGATGGCAGGCTCTATGCATCTGAGAACCATCAGGAAATACTTAAG
Seq A exon
GTGAGTGCCTGGCTCAGGTGGACATGGCAGTTATCCACAGAGCTTCCCGAGTACTGTTGGAGAAGGCTTCTCCTCCTGCTCCTTGTTGCCACCTTTCAGACACGGAGCCTGTCCTGGGCCAAGGTCAGTTTTATACCTTCACCAGACTTAATTTTTAAAAAAATCAGGTTGCTGTCTTTAGTGTTGTCAAGTGAAGTTGTATTTTTCAATTTGGAAACTTGTGGAGGGGCAGGGAGAAATTTGCTTATAAATCCAAACCAACAGCAAATAATGTTTTTCTATTAATTCCAAATAGTTGAGGATCCTTGGCTCTTTATGTATACTTCAAGCCTAAAATTCACCAAAGTTTAAATACTTATAAATAATTAGCAATAAACACTTGTGGTATCACTAATCCTACAAATACTCCCAAATCCCAGTGTTGCATTCATCTGGTTGGGAAAAAGAAAACAGGATTTTACATATTAAAGTTTTATTTATAAAAGTAATTCATACTTCTTAAAACTAATTAGGAAAAATAAAAACTGGAAAGAAGATAAAAATCAGAGGAAACAATTTTTGCAAGTGTTTTTCAGCTAAGCAAGCTACGGCCTAATACTGGGTCATTATAGTTCCATGGGCAAAATGTCAGCATATTTAAATATTTTGGCCCAGTAACAAAAATTCTGTTCTTTTTAG
Seq C2 exon
GATAAGAAACTTATCAAGGCTCTGTTTGATGTCCTGGCCCATCCCCAGAACTATTTCAAGTACACAGCCCAGGAGTCCCGAGAGATGTTTCCAAGATCGTTCATCCGATTGCTACGTTCCAAAGTGTCCAGGTTTTTGAGACCTTACAAATGACTCAGCCCACGTGCCACTCAATACAAATGTTCTGCTATAGGGTTGGTGGGACAGAGCTGTCTTCCTTCTGCATGTCAGCACAGTCGGGTATTGCTGCCTCCCGTATCAGTGACTCATTAGAGTTCAATTTTTATAGATAATACAGATATTTTGGTAAATTGAACTTGGTTTTTCTTTCCCAGCATCGTGGATGTAGACTGAGAATGGCTTTGAGTGGCATCAGCTTCTCACTGCTGTGGGCGGATGTCTTGGATAGATCACGGGCTGGCTGAGCTGGACTTTGGTCAGCCTAGGTGAGACTCACCTGTCCTTCTGGGGTCTTACTCCTCCTCAAGGAGTCTGTAGTGGAAAGGAGGCCACAGAATAAGCTGCTTATTCTGAAACTTCAGCTTCCTCTAGCCCGGCCCTCTCTAAGGGAGCCCTCTGCACTCGTGTGCAGGCTCTGACCAGGCAGAACAGGCAAGAGGGGAGGGAAGGAGACCCCTGCAGGCTCCCTCCACCCACCTTGAGACCTGGGAGGACTCAGTTTCTCCACAGCCTTCTCCAGCCTGTGTGATACAAGTTTGATCCCAGGAACTTGAGTTCTAAGCAGTGCTCGTGAAAAAAAAAAGCAGAAAGAATTAGAAATAAATAAAAACTAAGCACTTCTGGAGACATAATAATGTACATTTATTGCCAGCCTTCCTCGTTGCAAGCTTCCACCCTGCAGCAAATGCACTATGCTGACTCTCGCACCTTCAGCTGTGCCCTCTGACACTCTGCTGGCCATTGCCTGAGGGACTGGGGAGTTCAGGTGAAATGTAATTTCCTCAGTGGATGAGAATCATCAATTGTCATGAAAAGGCGATTTCACCAACCCTGAGTCGGTATTGCCAAGGGTTCTACTCCCCAAGTGGGCTTCCCATCACAAGGGATCTGAGGTCCAGGTGGGTGTGGTGAGGCCCAGCCTGTCATGTATGCCTTCCTTCCCCAGTCTCAAATGTGAGAGACGGACTCTGCTCCGTGGACATGAGCAGCCCCTTGAAGGGTGGTCTCATTCTCTAACAGTAACAGCACTGCCAGAAACACCCCCTGAATGCCACACGATCATCTCACTTTGGGTCAGGCCAGCAGGGCCTCACGATCATTTCTTGAACTTGAATTTTCAGTGTTATTGAATCTTTAAACATTTAAATCCCCAAGCAAAAATCTCATTACAGTGAATAAAAAGGAATCCAATCAAACAAGCCACCACTTCCCTAATGGATGGACTACCTACAACTATAGTGTTTTGTTATTTCAATAACAATTCTATGCACAGCCAATTCTCCATACCAAAGTACTAAAAAAATGTTTAACAAGCATTTTTGAAGAAAACAAAGAGAACTTCATTATGGTTAAACTTGCTTTTCATCTCAGTGTTGCTTTTTTTAACCTGTTAATAACATTGATTCTTAAAAAGTCCTAATCAAACTTCTTTATTTGGATGGGCCCTAAATATTCATTTTCAGATTTCTCTTCAAAAGTTTGAACATCATCATTAAAAAAAAAATAGCATTAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:21
Average complexity
IR-S
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACTACCAGGAACTCATTGA
R:
GAGTCACTGATACGGGAGGCA
Band lengths:
348-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)