HsaINT0146143 @ hg19
Intron Retention
Gene
ENSG00000141295 | SCRN2
Description
secernin 2 [Source:HGNC Symbol;Acc:30381]
Coordinates
chr17:45916157-45917009:-
Coord C1 exon
chr17:45916810-45917009
Coord A exon
chr17:45916373-45916809
Coord C2 exon
chr17:45916157-45916372
Length
437 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CTCCCCGATCTCCTCCACAGAGG
3' ss Score
9.47
Exon sequences
Seq C1 exon
GCTGGCTTTGGAACGGAGCAGCTCTGCCCAGGAGGCCTTGCATGTGATCACAGGGTTACTGGAGCACTATGGGCAGGGGGGCAACTGCCTGGAGGATGCTGCGCCATTCTCCTACCATAGCACCTTCCTGCTGGCTGACCGCACTGAGGCGTGGGTGCTGGAGACAGCTGGGAGGCTCTGGGCTGCACAGAGGATCCAGG
Seq A exon
GTGAGGTGTTCCCTTTCTCCCAGCTTTGGGAAGTGGGAGAGATGGTAGGGGCAGGGAGGGGCCCGATCCAGGTGCAAGCCTGTCAGGACATCCAGGGAGATGGGAGATGAGCCCACTTGGGAATTCTCCTCCCCTTCACTTGGTTAAGTCTTCCGTGTGCTACAGCCTGTTGCTTCCTCTGGGAAGCCTTCCTGGACTTCCCTGGGTGGTCAGGTTTCCTGCTTATATGCAAGCAGGTACTTCTTTTTCATCGCATTCAACACAGTTGCATGCTTACATTTATCTCTGTGATTATTTTGTCTGCCTCCCCCACCAAAACGTAGGCTCCATGAGGGTAGGTAGTTCTCTTCTCCACCATGTTCTCAGCACCTCGCCCAGTGCCTGGCATAGAATAGATGCTCAATGGTAAATGAACCACTCCCCGATCTCCTCCACAG
Seq C2 exon
AGGGGGCCCGCAACATCTCCAACCAGCTGAGCATTGGCACGGACATCTCGGCCCAACACCCGGAGCTGCGGACTCATGCCCAGGCCAAGGGCTGGTGGGATGGGCAGGGTGCCTTTGACTTTGCTCAGATCTTCTCCCTGACCCAGCAGCCTGTGCGCATGGAGGCTGCCAAGGCCCGCTTCCAGGCAGGGCGGGAGCTGCTGCGGCAACGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141295-SCRN2:NM_001145023:4
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=0.055
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PU(34.5=76.5)
A:
NA
C2:
PF0357710=Peptidase_C69=PD(30.1=97.3)
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:
CTTTGGAACGGAGCAGCTCTG
R:
GCTGGGTCAGGGAGAAGATCT
Band lengths:
342-779
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)