HsaINT0146196 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9075184-9077456:-
Coord C1 exon
chr11:9077340-9077456
Coord A exon
chr11:9075307-9077339
Coord C2 exon
chr11:9075184-9075306
Length
2033 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GAGAGTATTTTGTTCCACAGACA
3' ss Score
5.61
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCTCTTTGGATAGGACCTGTGACCACAGCTGCATCAACCACCCTGGCACATTTGCTTGTGCTTGCAACCGAGGGTACACCCTGTATGGCTTCACCCACTGTGGAG
Seq A exon
GTGAGCAGACTGCCCCTGTCAAGTTGGGAGGGGAATGAGGCTGGGCCTGGAGGGGAGCAGGGCCTACCCCTGAGGTTTGCTTTCCTACATTGGGGTATGAAAGGTACATTGCAGTCCCTGAGCAATAGCGGTGAGTCCATCAACTTGAGAGCAGGATCTGCTAAAGGAAATCTCCCCACATGTATCCCTTTAACACACCGAGTGTGAAATGGAGCAGAGAGAAGAACTGAGCTCTTCCAGCTGTGAATTCTCTATCGACTTGATTGACTTGCGGCTGTATTCAGAGAGTGGAAGGGTATCTCAGGAGCTGATAACCTATCTATTGGAACATCTCAGCAGATAGTAAAGTCACAGTCCTCAGAGAGGCTTGGGGGGCACCCACCAATTCCACAGCCCTGCTATGCATAGGAACTGGCTGCAAAGCCTTGGTTTGAGTCCCACAACTAGGTCTTTGAGCTGGAAGCAGAACTATGAAGTTTCTCTCTCCACTCTGTGCCCATTTTGCAAAATGTTCTCATGTCTCATAACCTCATGGTCAAGCAGGCTATGCCATAAACTGGATTTGTTACCAACTAACTCCCACTCCACTCCCCCAGCCATCAGATTCACCCAGCAATCTTTGAGAATACAGGTTCAGATTCCAATTCAGAATGTCTAGGACTTCCAAGGTCATCTTCCTGAGGATCTATAGGATTTGGGAACCACTGGCTTAAATACTTCCTGACCAGTCCTGAGTCTTGTGCTTTAGAAGATTGGATATGCTGGGCGTGGTGGCTTACGGCTCTAATCCCAGAACTTTGGGAGGCCAAGGCGGGCGGATCACCTGAGGTCGGGAGTTCGAGACCAGCCTAACCAACATGGAGAAACCCTGTCTCTACTAAAAATACAAGATTAGCCGGGCGTGGTGGCGCATGCCTGTAATCCCAGCTACTTGGGAGCTGAGGCAGGAAAATTGCTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCCGAGGTTGTGCCATTGCACTCCAGCCTGGGCAATAAGAGCGAAACTCCACCTGAAAAAAAAAAAAAAAAAAAAAAAAAAATATATATATATATATATATATATACACTAGTGCTTTGCTACTGACAGTTATCTCCCTTCTCCCTTTCAACACATCCTTGGCATGGCCAAAGACATACTACTCTTCCCAGTCCATCAGGAAACCTCGAGGAAATGTACCCTGAGTATGGATGTATGTCTGGGTTTAGGTGGAGCTACCTTTTGATCTGGACTCAGTCTCAGGTTGATGGGAATTAGTGTAGTCACTTCCCTTTCTCTGTGCCTCAACTGTGTAAATGGTTAAGCAGGGAGTCCCAGTTCTGTCTGCCTCCCTTGCTAGGCAGCTCAGAAGGATGGTAGAGTTTTAAAATAGAAGTCTGTGCAGTGTCTGAGTTTGGACATCTGAAAGTAGAGTGCGGATCCTTCTGAGTGTTGCTAATGGAGGAATGGATTGGTCAAGAATGGAGCTTGAGTCTGGGTGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGTGGATCACCTGAGGCCAGGAGTTCCAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAAATTAGCCAGGCGTGTTGGCACATGCCCGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAAGCTGGGAGACGGAGGTTGCAGTGAGCTGAGATGGTGCCACTGCACTCCAGCCTGAGTGACAAGAGCAAAATTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAGAGTGGAGCTTGAGAAGGCCCTATTGAGCCTCCTGCCAGGAAATTTGCTGGGTGGGGAGTGGGGTGTGCAGTCAGCTGGTGCCGAGCGCTCATGCTAAAGGCATTCAGTGTCTTCCTTTGGTTAGTGAGTTTCAACCTTGTGACTCCCCTGCTGCTCCTTCCTCAAGGGAGGGACCATGTCAGCCCATTCAGTGACAGGCTGCTATGACAGGAGAGTATTTTGTTCCACAG
Seq C2 exon
ACACCAATGAGTGCAGCATCAACAACGGAGGCTGTCAGCAGGTCTGTGTGAACACAGTGGGCAGCTATGAATGCCAGTGCCACCCTGGGTACAAGCTCCACTGGAATAAAAAAGACTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:10
Average complexity
IR-S
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:
PF0764510=EGF_CA=PU(92.7=97.4)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)