HsaINT0146208 @ hg38
Intron Retention
Gene
ENSG00000175356 | SCUBE2
Description
signal peptide, CUB domain and EGF like domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30425]
Coordinates
chr11:9020884-9021955:-
Coord C1 exon
chr11:9021876-9021955
Coord A exon
chr11:9021198-9021875
Coord C2 exon
chr11:9020884-9021197
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
GATAAGAAACTTATCAAGGCTCTGTTTGATGTCCTGGCCCATCCCCAGAACTATTTCAAGTACACAGCCCAGGAGTCCCGAGAGATGTTTCCAAGATCGTTCATCCGATTGCTACGTTCCAAAGTGTCCAGGTTTTTGAGACCTTACAAATGACTCAGCCCACGTGCCACTCAATACAAATGTTCTGCTATAGGGTTGGTGGGACAGAGCTGTCTTCCTTCTGCATGTCAGCACAGTCGGGTATTGCTGCCTCCCGTATCAGTGACTCATTAGAGTTCAATTTTTATAGATAATACAGATATTTTGGTAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175356:ENST00000520467:21
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
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