HsaINT0146145 @ hg19
Intron Retention
Gene
ENSG00000141295 | SCRN2
Description
secernin 2 [Source:HGNC Symbol;Acc:30381]
Coordinates
chr17:45915047-45915816:-
Coord C1 exon
chr17:45915636-45915816
Coord A exon
chr17:45915369-45915635
Coord C2 exon
chr17:45915047-45915368
Length
267 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCC
5' ss Score
7.91
3' ss Seq
TCAGCTTTCCCTTGGGGCAGGAT
3' ss Score
6.04
Exon sequences
Seq C1 exon
GTCTGTGTTCAAACCTTTCATCTTCGGGATGGGGGTGGCCCAGGCCCCCCAGGTGCTGTCCCCCACTTTTGGAGCACAAGACCCTGTTCGGACCCTGCCCCGATTCCAGACTCAGGTAGATCGTCGGCATACCCTCTACCGTGGACACCAGGCAGCCCTGGGGCTGATGGAGAGAGATCAG
Seq A exon
GTATCCCCCAGGGAGTAGGGGCTACCTTGAGGGGATGATAGACCTCCCCCACTCCCAGTGGGACTCTGGAAATATGAAGGAACTAGGGAGTGGAAGAGATTTCAGAGCTGGGGAGAGGAGTTCCTCCCTTCAAAGCCAGCAACTGCCTTTGGGGAATGTCGGGGGGTATCTCCTTTCTCCTGCTTGTGTGAGGTGGTACACAGTCCCCCCTTCACCTGGCGGGAAGCCTGTCCCGGACAGACTCATCTCAGCTTTCCCTTGGGGCAG
Seq C2 exon
GATCGGGGGCAGCAGCTCCAGCAGAAACAGCAGGATCTGGAGCAGGAAGGCCTCGAGGCCACACAGGGGCTGCTGGCCGGCGAGTGGGCCCCACCCCTCTGGGAGCTGGGCAGCCTCTTCCAGGCCTTCGTGAAGAGGGAGAGCCAGGCTTATGCGTAAGCTTCATAGCTTCTGCTGGCCTGGGGTGGACCCAGGACCCCTGGGGCCTGGGTGCCCTGAGTGGTGGTAAAGTGGAGCAATCCCTTCACGCTCCTTGGCCATGTTCTGAGCGGCCAGCTTGGCCTTTGCCTTAATAAATGTGCTTTATTTTCTCTTCAGTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141295-SCRN2:NM_138355:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.365
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:
AGACTCAGGTAGATCGTCGGC
R:
CTTTACCACCACTCAGGGCAC
Band lengths:
305-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)