HsaINT0146140 @ hg19
Intron Retention
Gene
ENSG00000141295 | SCRN2
Description
secernin 2 [Source:HGNC Symbol;Acc:30381]
Coordinates
chr17:45918036-45918699:-
Coord C1 exon
chr17:45918574-45918699
Coord A exon
chr17:45918210-45918573
Coord C2 exon
chr17:45918036-45918209
Length
364 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
AGAGGCCCGCCTCTCCCCAGATG
3' ss Score
7.24
Exon sequences
Seq C1 exon
CCGGCTCCGACCCCGAGGCCGAAGGCCTTCCAGGTCACCTGAGAGTCTCCGCCCAATGGGGCGGCCCTGGCCAGAAGCGGAGGAGGTGGCACCCGGGACCGAGCTGGGGTCTTGGAGGAAGAGAGG
Seq A exon
GTGAGGGGAATACAGTACTGGGGGTGAGAGAAGGGTTGGACAGAAGAGGGTCGGGTATCTGGGCATGCGCAGGGCCGCAGGACTCTTGGTGGGGTAGCGAGGGGGACGGTCCCACGACTGCTCCGAAGGGCCGGGACTCCCAGTGGGGGCGGGACCCCCGGAGTGCCCGCCTGCGGACTCCCAAGCCTGGAGCCTGGGGAGAGGGTGGGCACCTCCGTTCCCGCACACCCGTCCATGGTGTGTGCGCCGAGCGTCCAGGAGCCACGGCGGTGTCTTCCTTGCGCGTCTTTTACACGTGTGGGGGTAGGCTGCTCCTCGGGGCTGAGCCGTGGCCAGGGTTATGGAGAGGCCCGCCTCTCCCCAG
Seq C2 exon
ATGGCGTCGTCGAGCCCTGACTCCCCATGTTCCTGCGACTGCTTTGTCTCCGTGCCCCCGGCCTCAGCCATCCCGGCTGTGATCTTTGCCAAGAACTCGGACCGACCCCGGGACGAGGTGCAGGAGGTGGTGTTTGTCCCCGCAGGCACTCACACTCCTGGGAGCCGGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141295-SCRN2:NM_001145023:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.138
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0357710=Peptidase_C69=PU(15.3=62.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAAGGCCTTCCAGGTC
R:
GGCTCCCAGGAGTGTGAGT
Band lengths:
274-638
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)