HsaINT0146193 @ hg19
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:30425]
Coordinates
chr11:9052305-9055343:-
Coord C1 exon
chr11:9055173-9055343
Coord A exon
chr11:9052473-9055172
Coord C2 exon
chr11:9052305-9052472
Length
2700 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
AAGGCTATTGGTCCTTCCAGGTC
3' ss Score
6.29
Exon sequences
Seq C1 exon
TCAGTTGCAGGGCTGGGACCTATTATGATGGAGCACGAGAACGCTGCATTTTATGTCCAAATGGAACCTTCCAAAATGAGGAAGGACAAATGACTTGTGAACCATGCCCAAGACCAGGAAATTCTGGGGCCCTGAAGACCCCAGAAGCTTGGAATATGTCTGAATGTGGAG
Seq A exon
GTAAGGATGCTGTCTGTTCCTTCCTACTCCTCCCATCTCTGATGTCATTGTTTAGACAGAAGGCATCTCAAGGACTCCAGACAATGCACACTCACCCGGGGCTTCCTACAAGCAGGGACCACGTTGGCTCGATTCATCTTTGGCTCACCAGTGCCTAGGTCAGTGCCTGACACATGCTGGGCAGATACTCATTTGAGCAAATAAATGAAGATGGGGTAGAATACACTAGCAGAAGAGCGTAAGTGTTGAAACTGCGTGCTTTCTTCACTGGAAATATATACACCTGAAACCTGAGTGATTTCCCTATCTATAGGTACTGTTTTGAAAGTGTTAAAATGAAGAGAGGAGGTCTGGGTTTTTCTCCAGCTTTGGTCTCAAATTCTTAGCTTTTTTATTTAAAACAAATATATCCGTTTATTTTGTTAAAACTGGGACCTCCTCTGTGAAGAGCTTTTCATTATCTCTTATAAAATGTTAACTTTGAAGTCAATCTCAAGCTCTGTGGGCTTTCCTATTTATTTTATTATTAAATGTCTTCCTTTTATTAAATGGGAGAAGGGCTGGCTGTATTGACACTCTGTGGGCTCCAATGGCAGGTGTGATCTGAATGGTGATTTATATCTGATGGCCACGGCAGAGTGAAGACCCCTCGTGCTGCTCCCACGGCTGTCCTTGGAGTGACTCCCAGCCTCAGCTTTATTTCCCACCTAAATAACTCCAAACTGAACTGCAAGGCTGTTTCTGGCTTAAAAATCAAATCCTCATATTGACTGTGTGACTCCTATCATCTCTTTGGTCTGTTATAAAACTCCAAAACTAACTGCAAGGTTGATGAGGGGTGACATTTTGGCATGAATTTACCCTTGTATGTGACATTATTATTATATTTTCTTGAGACAGAGTCTCACTCTGTCACCAAGGCTGGAGTGCTGTGGTGCAATCTCGGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCATGCCTCAGCCTCCAGAGAAGCTGGGATTACAGGTGCGTGCCACCATGCCCTGCTAAATTTTGTATTTTAGCAGAGATGGGGTTTCGCTATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCACCTGCCTCGGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACTGCACCCGGCCTATGTGACCTTATTAAGAAAAATTTAGGCCAGGCATGGTGGCTCATACCTGTAACCCTAGCACTTTGGGTTCAGGATCACTTGAGCTCAGGTGGCTAACCCTAACCCTAAGACCAGCCTGGGCAACATAGTGAGACCTCGTTTGTAGAAAAAAATTAAAAAAAACAAAAAATAGCTGAGCGTGGTGGCACATGGTAATCTCAGCTACTTAGGTGGCTGAGGTGCAGGGACAGCTTAAGCCCAGGAGGTCAAGCTGTAGTAAGCTGTGATTGTGCCACTGCACTCCAGCCTAGGCAACAGAGACCCTGTCTCAAAAAAAAAAAAATGACAGCAATAAGAATATTAGTAATAATGGTTATTATAGCTACCATGTATTGAATATTTACCTATGCCAGGCATTATGCTAAGTATATTATATGAATTATTCACAATTCATATAATCATTACAACTCCACGAGGCTACAGTGACTCTTTTAAGGTCACACAGCCAAGTGGAGGATGTGGAATCAGAACCCAGGTCTGACAGGCTCCAGGCTCCTCCCAATGGTGTGTGTTCTTGAAATGCCATCATATCTATAACTTATGGGGGAAAATGAGACCACTATGATTAATAGAGGAGAGATGATTAAGAATATAAGAGATAGATAGCAGATTTTGATAGCATCTTGCCAATGACTAATTCCTGAGGAACATGTGCTTTTAGAAATCCTTTTGTTTGTTTATGACTGTGTTTCTTGTCCCAGGTATAACATGTGTAAGATCTAACTTAGTAAATATTATTGTTAAAACAGGGGAGACTCTTTGGGTCACTCTTTTTTTTTTTTAGAGACAAGGTCTTTCTGGATCACCCAGGCTGGAGTGCCGTGGTGCAAATATGGCTCACTGCAGCCTGGAATTCCTGGGCTCAAGTGATCCTCCTGCCTCAGTCCCAGAGTAGCTGGGACTACAGACATGTGCCACTATGTCTGGCTAATTTTTAAATTTTTTTGTAGAGATTTCGCCATGTTGCCTAGGCTGGTCTTGAGCTCCTAGGCTCAAGTGATTCTCCTGCCTCAGCCTCCCAGAGTGTTGAGATTACAGGCGTGAGCCATCAAGCCCAGCCCGGATCACTCTTTATATCAATAGGCTGTAATCAGCTGGGTAAAGGGGTACTTCTGGGTCTAATTACCAAATTGGTCCCAGGGCAGAGAACTCTCTCTCCTGCATTGCAGGGGATGCCTAGGCAGTGTGTAGGCCTAAGCCTGAGAACTACCCAGGCCTTCCCATACTTTGGAAGCAGTTGACACTTGACTTCTTGGTTTCCATCTTTGCACTGTGCTGTGTAGCCCTGTGTGTAAACAGCAGGCACTCATGTGCCATTGACTCAGGGTCAGAAGCACCACAGCATTGACTGTGTGCTCTCTGACTGAGGTGGGAACTGCGGTCAGCACTGGGTAACAGGTTGGACTGAAGTTGGTCTCATTTGGAGAGTGGGGAGCAAGGGTCTGCCTGGAGGCCTTGCTCACGTAAGGCTATTGGTCCTTCCAG
Seq C2 exon
GTCTGTGTCAACCTGGTGAATATTCTGCAGATGGCTTTGCACCTTGCCATCTCTGTGCCCTGGGCACGTTCCAGCCTGAAGCTGGTCGAACTTCCTGCTTCCCCTGTGGAGGAGGCCTTGCCACCAAACATCAGGGAGCTACTTCCTTTCAGGACTGTGAAACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356-SCUBE2:NM_001170690:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=WD(100=87.9),PF075629=NCD3G=WD(100=46.6)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]
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)