HsaINT0146141 @ hg19
Intron Retention
Gene
ENSG00000141295 | SCRN2
Description
secernin 2 [Source:HGNC Symbol;Acc:30381]
Coordinates
chr17:45917557-45918209:-
Coord C1 exon
chr17:45918036-45918209
Coord A exon
chr17:45917739-45918035
Coord C2 exon
chr17:45917557-45917738
Length
297 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TTCTCCTCCCTCACCTCCAGTGC
3' ss Score
9.85
Exon sequences
Seq C1 exon
ATGGCGTCGTCGAGCCCTGACTCCCCATGTTCCTGCGACTGCTTTGTCTCCGTGCCCCCGGCCTCAGCCATCCCGGCTGTGATCTTTGCCAAGAACTCGGACCGACCCCGGGACGAGGTGCAGGAGGTGGTGTTTGTCCCCGCAGGCACTCACACTCCTGGGAGCCGGCTCCAG
Seq A exon
GTGGGTTAGACTTTATGGGGTGCTGGGAGGTGTGGCAGATCTCTGCATTCTTTTAAGACCTTCTTCCCTGCTCCCCACACCTGGGAGGCTGCCAGAAGTAGTGGAAGAGCATGAGCTTTAGGTCTACCAACCTGGACCTGAGCTCATTATGTAGCCTCAGTCTACCTCAGTTTCCTCTTCTGTAAAATGGGAATGAGACCTTCCTCAAAGGGATCTATAAGGTAATTGGCAGAGTGCCACACTCGAGGGGCCGCCCCTCTATGAGTGGACGCTTCCTTTCTCCTCCCTCACCTCCAG
Seq C2 exon
TGCACCTACATTGAAGTGGAACAGGTGTCGAAGACGCACGCTGTGATTCTGAGCCGTCCTTCTTGGCTATGGGGGGCTGAGATGGGCGCCAACGAGCATGGTGTCTGCATTGGCAACGAGGCTGTGTGGACGAAGGAGCCAGTTGGGGAGGGGGAAGCCCTGCTGGGCATGGACCTACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141295-SCRN2:NM_001145023:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PU(15.3=62.1)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(25.4=100)
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:
ATGTTCCTGCGACTGCTTTGT
R:
CAACTGGCTCCTTCGTCCAC
Band lengths:
293-590
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)