HsaINT0146200 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9069490-9072257:-
Coord C1 exon
chr11:9072153-9072257
Coord A exon
chr11:9069646-9072152
Coord C2 exon
chr11:9069490-9069645
Length
2507 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
AATTTTGTTTCTTCATACAGAGA
3' ss Score
7.17
Exon sequences
Seq C1 exon
ATGTCACCACCATCAGGACAAGTGTAACCTTTAAGCTAAATGAAGGCAAGTGTAGTTTGAAAAATGCTGAGCTGTTTCCCGAGGGTCTGCGACCAGCACTACCAG
Seq A exon
GTATGGAATCAGGTGGTTGGTGTAGGGAGCTTGCCTGCATGTGGGAAGGGGCCTGCAGCCAGCCGAGCTGGAGGTCCATGGGGGCCAGGGGCTGTCCAGCCGATCCAAGCACACTGCAGATGGAACTGAACCATCCCCAACTTCCAGGGACTCATCCCAAGAGGAAGAAGAGCATAACCTAGCATGCTTGTATAGTTCTGGGGTCACACTTCGGGGCTTCCTTTGCATGGTATAGTTGGTGAGGCTCTGGGGAAACCCACGAGTTCACAGAAGTCAATAAGGGCTTCAGATGAATTAGCAATTTGTGATCATATTGGGTTAAATTTTCTAGATCTCAGATTTTGCTTGAAATATAAGCCAAAGAAATGAAAAAAGGTTTGGCTCAGAAAGGATAACTTTGATGAACAAAGATCTAATATCCAGCCTTCCTGCTGGGTCTAGTTTTTGGAAGCGGTGACCCCATTGGCTTCAGCAAAGCAAATACCATCCAAGTAGAACTGGCCTTATTGAGAAGAGCAGAATCTAACATTCCTTTTTCTTTCCCAGCACACATTTCCAGTATTATTTTATAGAATTCTTTTGGAAATTAAAAATAAAAAGGATCAGGATTCATGTATTAGGGAGGCTTCTTTTCCCAATCTACTCTCAAATCACACAGACAAATAAACCTAAAGCTCACTCTAGTCACTTTTGACTGCCTATTTTAGGTAAGTATTTTTAAGAAACTTGGTACCTCCATTTGATGGAATATTATGCAGCTATTAATTCTATGTTTTCAAAGAATGTTTAATGACACAGGAAAATGGTCTTGTTATAATGCTGAGATGTAAAGCAGGAGAGAAACATTTTGTATATCTAATACAATCCAAATTGTGTAAGAAAAACTGTGGTAGAAGAAACAAAAAGAAAACTCACCCTATCATTAGTAGTGGTTACATCTGGGTGGGAGGCATGGGTAATTTTAATTTTTTTTCTGCATTTGCCAAATTAACCATAGTGAGCATTTATACTTTTAAACCTCAGGGGTGAAGGGAGGGGCCATTGCTTAAAAATAGATTTGAACCAGTTGTGGTGCCTCATACCTGTAATCTCAGCACTTTGGGAGGCCAAGGCAGGCAGATTGCTTGAGTTCAGGAGTTCAGGAGCGGCCTGGGTAACATGACAAAACCCCATCTCTACAAAAACTATAAAAAAATTAGCCGGGCCTAGTGGTTTGTGCCTGTAGTCCCAGCTACTCAGGAGGCCAAGGCGGGCGGATCACTTGAGCCCAGGAGGTTGAGGCTGCAGTGAGCTGTGTTGACACCACTGCACTCCAGCCTGGGCGACAGAGCGAGACCCTGTCTCAAAAAAATGAAATAAATACAATGATAAAAATAGACTTGGCCTATAGTTTACTTAATGGGATTGTACTAGTGTTAATGTCTTAGTTTTGATAAATGTATGATGTTAACGTTAGGGGAGACTGAGTGAAGGTTATGTGGGAACTCTATACTATCTTAGCAACTTTTCTATAAATCTACTTATTTCAAAATGAAAAGTTAAAAAAATATATATGGAAACATCGAAAGGGAAAAAGATTTAAAATGAGAATCTGTTCAGTTTAAGATCTGAAGTTACCCTTTTGAAAAAGTAAGATAAATCTTTAGGGGAAAAATGTAGAGAAGAAATAAATCTGCCTCCTTCCTGTGGCCCCTGTTGACCTATGGCTTGAATGTCCTTGTAATGTTAAAGAAGAATCTGATACAGGCAATACTTCATTTCAATAAAGATTTTGAAATAGAGACAAATTCATGGAGTGGATGATATGTGGACCTGCTCTTTGGTGAGGGTTAACAGATTCACTGGAAACCATGGTGAGAGGGGAGACAGCCAAGTCAGGAAGAAGGATGTGCAAAGCCCTGTCATGCAACACTTCCACTCTCATCCTAGATGCCTTCATGATATTGTTAGGTTCTGTTGATGCTTTGTACCATTTATTGCTCCTGGTTATTTAAAAATGAGACATCACTGCTGACGGGTGTTCCAGCTTTCCTTTCAGGTTAGAATGACTCCAAGGTCAGTTTGCCTGAAAGCAGTAGTTGGTTTCCTTTCCACTCTTGTGCTCATTCCTTATTTGAAGCCTCAGCCCCTGCTCGGCACATCCAGCTTTATGCAAACCAACTGTGAGAGTGTAAGCACACGTTAGCAAACCGTCAGTAAGGAATGCAAGACAATCCCTGGTTCTTGTCTTCCACATATGTGGCTAGTCAGTCGGAAACATCTCCCATTTATTCATGAAAAGAATTTTCAAGAGCTAAATTGTAAAGTTATATAGGAGGCAATGCTAGCTCTTCAACATTAAAATGTCGTTGTGCTCCAAGTTAAGGGCTTGCAGTGTCTTGGCATCTGGAGATAATCACTTAGTCCCTTGAGAGTTGTTTTAATGAAATGTTTACTGAGCTCTAGCAAATGTTCAGCTGAGTGCTTTGCCAGGATTTGGCTTCCGATAATTTTGTTTCTTCATACAG
Seq C2 exon
AGAAGCACAGCTCAGTAAAAGAGAGCTTCCGCTACGTAAACCTTACATGCAGCTCTGGCAAGCAAGTCCCAGGAGCCCCTGGCCGACCAAGCACCCCTAAGGAAATGTTTATCACTGTTGAGTTTGAGCTTGAAACTAACCAAAAGGAGGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_020974:14
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.093 A=NA C2=0.349
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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)