HsaINT0148424 @ hg19
Intron Retention
Gene
ENSG00000063015 | SEZ6
Description
seizure related 6 homolog (mouse) [Source:HGNC Symbol;Acc:15955]
Coordinates
chr17:27284965-27286239:-
Coord C1 exon
chr17:27286043-27286239
Coord A exon
chr17:27285160-27286042
Coord C2 exon
chr17:27284965-27285159
Length
883 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
TTGTGCCTCTGTGCCCCCAGAGG
3' ss Score
10.01
Exon sequences
Seq C1 exon
GCTGCGCATAGGCCCTGGTGATGTGCTTACCTTCTATGATGGGGATGACCTGACGGCCCGGGTTCTGGGCCAGTACTCAGGGCCCCGTAGCCACTTCAAGCTCTTTACCTCCATGGCTGATGTCACCATTCAGTTCCAGTCGGACCCCGGGACCTCAGTGCTGGGCTACCAGCAGGGCTTCGTCATCCACTTCTTTG
Seq A exon
GTGAGCTTGTCCCTACCCCACTCAGAGTGCAGACAGCAAGCCATGGCAAGCCAAAGAGGCTAGGGCAGTGAGGTGCCTGAATGCTGTCTCAGACAAGAGTAAGCTGGAAAAGCACCAGGGATCACCTGGAGGAAGCTAGTCCTGTTCTCCATCTGCCCTGAGGGAGAGCCAGAATTCTATAGTGGCAAGAGGGGTTTGGGTAGGCAGCAGAACAACTTTCTTTTTCTTCCTTTTTTTTTTTTTCTGAGACAGTTTCCCTCTGTCACCCAGACCATGGTGTGATCTCTGTTCATTGCAACCTCCACCTCCTGGGCTCAAGCGATTCTCGTGCCTCATCCTCCTGAGTAGCTGGGATTATAGGCACATGCCACCACGCCTGGCTAATTTTTTTATTTTTAGTGGAGACCGGATTTTGCCATGTTGGCCTGGCTGGTCTCGAACTCCTGGCTTCAAGTGATCTGCCCACCTCAGCCTCCCAAAGTGCTGGCATTACAGGTGTGAGCCACTGCACCTGGCCAGAACAACTTTCAAACAAAAATGGGGGAACTAAGGAAAGGTGCTGGCTTCTATCTTTCTGACAATCTTTCATAGAAGTGACGATTTCCCTCACCCTACCTGGCCCCATCTCTCAGGCCTAAGGAACTGGTCAAGGTGCTTTTGGAAGTAAGGCCAAAGCTTAAATGCTAACCCTGGAATCTAGGAGACAGAGCAATGTCAGGCAGTCAAGGAGGGGCCCTTGAGCAGGGAGGAATGGATCCCTGAGCCCGCCCAGGACAGTCTAGGTCCAGGACAAACTAGCAGGAGCCAGAGTGCCCTCAAGGTGAGGGGGACAGTCACTTTGGTGCTGGCCGAGGGCCTGCATCTTGTGCCTCTGTGCCCCCAG
Seq C2 exon
AGGTGCCCCGCAATGACACATGTCCGGAGCTGCCTGAGATCCCCAATGGCTGGAAGAGCCCATCGCAGCCTGAGCTAGTGCACGGCACCGTGGTCACTTACCAGTGCTACCCTGGCTACCAGGTAGTGGGATCCAGTGTCCTCATGTGCCAGTGGGACCTAACTTGGAGTGAGGACCTGCCCTCATGCCAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000063015-SEZ6:NM_001098635:10
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=0.121
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(58.7=95.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=84.8)
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:
TAGGCCCTGGTGATGTGCTTA
R:
GTTAGGTCCCACTGGCACATG
Band lengths:
352-1235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)