HsaINT0146147 @ hg19
Intron Retention
Gene
ENSG00000144306 | SCRN3
Description
secernin 3 [Source:HGNC Symbol;Acc:30382]
Coordinates
chr2:175264650-175265917:+
Coord C1 exon
chr2:175264650-175264831
Coord A exon
chr2:175264832-175265717
Coord C2 exon
chr2:175265718-175265917
Length
886 bp
Sequences
Splice sites
5' ss Seq
CAGGTTATT
5' ss Score
3.49
3' ss Seq
ACTTTATATTTTTGTTTTAGACT
3' ss Score
9.37
Exon sequences
Seq C1 exon
TGTACATATATAGAAATTGATCAAGTTCCTGAAACATATGCTGTTGTCCTGAGTCGCCCAGCGTGGTTGTGGGGGGCAGAAATGGGAGCCAATGAGCATGGAGTTTGCATTGGGAATGAAGCTGTATGGGGAAGAGAAGAAGTTTGTGATGAAGAAGCACTATTAGGAATGGACCTTGTCAG
Seq A exon
GTTATTTTTTGTTACATTTTATACTACAGACCTTGTCTAAATTTATAATTTTTGTGTAACTCTTACTTGTTTTATTTTCCTATTTTTGAGGGGGCTTTGATACTTTGCAGTTTGTGTCAAAATGGTTTAAAGTACCGGCATGCAATTTCATGACTCTCAGTTTTGTTTGGTTTTTTAAAATTAATTAATTTTTATTTTTTTGAGATGAGATCTCACTGTGTCATGCAGGCTGGAGTATAATGGTGTGATCATGGCTCACTGTGCCCTTGAATTCCTGAGCTCAAGCAATCATCCCACCTAAGTCACCCAAGTAGCTTGGATCAAAGGCACGTGCCACCACACCTGGCTAATTTTTAATTAAAAAAAATTTTTTTTTCAGAGACTAGGGTCTTGCTATGTTGCTTATACTTGTCTTGAACTCCTGGCCTCTAGCCATTCTCCTGCCTCAGCTCCTGAGTAACTGGGATTACCAGCACAGGCACCATGCCCAGCTTTCAGATATTATTATTTGGGAGAAGGGAAGAAGTAGGAAATTATAATTCATTGGAAGTACCTAACATACTTTAATCACACCTTAACTAATTCTCACAATAACCTCATGGGCTATCGTGCTCATTTTACAAATGAGATATCTGAGGTTCAGAGATAAAGTAACTTGACAGTGAATTACCAACTTCGAATTTGATAGGTTTGTTTGACTCCAGAAACTTTATTTCCATGATTCCAAACTGACTTCAGAAGGAAAAGTTTTAAAGTTAGATGTCATTTCATCTGTTAACTTGGAAGAAATTTTACTTTGAATCTAAAAAATCTCATGAGCATGAAATTATTTAAAAAAAATAATGGAAATTTATTTTAATATGAGAACTTTATATTTTTGTTTTAG
Seq C2 exon
ACTTGGCCTTGAAAGAGCTGATACAGCTGAAAAAGCCCTCAATGTCATTGTTGACTTACTAGAAAAATATGGCCAGGGTGGAAATTGCACAGAGGGTAGAATGGTATTTAGCTATCACAACAGTTTCCTGATAGCTGATAGGAATGAAGCCTGGATTCTGGAGACTGCAGGGAAGTACTGGGCAGCAGAAAAAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144306-SCRN3:NM_001193528:3
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=0.000
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PU(21.2=70.5)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(24.9=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:
TATGCTGTTGTCCTGAGTCGC
R:
TGTACTTTTTCTGCTGCCCAGT
Band lengths:
344-1230
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)