HsaINT0146150 @ hg19
Intron Retention
Gene
ENSG00000144306 | SCRN3
Description
secernin 3 [Source:HGNC Symbol;Acc:30382]
Coordinates
chr2:175287613-175289377:+
Coord C1 exon
chr2:175287613-175287775
Coord A exon
chr2:175287776-175289202
Coord C2 exon
chr2:175289203-175289377
Length
1427 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAG
5' ss Score
4.41
3' ss Seq
ATAAAGACTCTTTTTTCTAGATC
3' ss Score
5.48
Exon sequences
Seq C1 exon
GAAATATAACTTTTGAAACAATGATGGAAATTCTTCGAGATAAACCAAGTGGCATTAATATGGAGGGAGAATTCCTGACCACTGCAAGCATGGTTTCTATTTTACCTCAAGACTCCAGCCTTCCTTGCATTCACTTCTTTACAGGGACTCCTGATCCTGAGAG
Seq A exon
GTGAAGCCACAAAATACTATAAACCAGCAAGGGGTCAGGGGATGGAGTAGAGTCATTAGTATGTTAATAATTTTGTCAGGATAAATTTTTGTTATACAACTAGGACAATAATTTTTAATATATTTTCTGTTCAGGCTTTAATCTGCAATATCCACAAATGTGTAACTGTTCTCTTTTTATGGGAAGGAAATGTGAATAGTTTCTTGTATGCGTTATCCCTACTCCTTCTTCGTACAAATAGATTTAACATAGTCAAGAAAAGAAAGTAGATAGATTTTCTTACTCACATTTCAGATATGATATTAGATAATTCATAACAGTAAAAATGTTAAATGATGTAGTTGTGCAGGATTTACTTATGCACTTGTATCTAGAAAATACATGTGAAACTTAAAATATCAATAGTTCCAGTTTTATTTAATTATTATTATTACTATTTTGAGACAGAGTCTCGCTCTGTCACCCAGGTTGGAGTGCAATGGCATGATCTCAGCTCACTGCAACCTCTGCCTCCCAAGTTCAAGAGATTCTCATGCCTCAGCCTCCCTAGTAGCTGGGATTACATGCGTGCGCCACCACACCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACTGTGTTAGCCAGGATGGTCTTGATCTCCTGACTTTGTGATCCGCCCACCTCGGCCTCCCAACATGCTGGGATTACAGGCGTGAGCCACCGCACCCGGCCAAGTCTTCCTTTTTTTTTTTTTTTTTTTTTTTTTTGACACAGGGCCTTGCTCTGTCACCCAGGCTAGAATGGAGTGCAGTGGCACAGTCAGCATGCTGTAGCCTTGAACTCCTGGGCTCGAGTGATCCTCCTGCCTTAGCTTCCCAAATAGCTGGTACTGCAGGTGCATGCCACCATGCCTGGCTAATTTTTAATTTTTTTGTGGAGATGGGGTTCTGGCTATGTTGCCCAAGGCTATTCTTGAACTCCTGGTCTCAAGAGATTCTCCCACCTTGACCTCTGAAAGTGCTGGGATTACAGGCATGAGCCACTGTGCCCAGCATGTGTCCTCCTTTACTGACACTGGCGCTGATGTTCACCCCAAGTCCTAATCCTCTTCTGTAACATTAAAGGTTGTTCTTATCCTCCAACTGTGGAATGTGAAGTAGGAAAGACAAACTATTACTTTGCTGACACTGTTTATGTGCCAGGTCCTCTGTTAGGTTCATGGGAACACAACACTAAATAAAGTATGGTTCCCTGCCCCAAAGGAGATCCCAGTGTCCCCAGGGAAGACAGGCATGGGTATAACTAATGTGACAGGAACAAGTTAGTATGTAGCATCATTAACAGAAACTTCTAATTGAGAGAATCTTAGAAGACTTAGACTAACACTGAATATTTTTATATATTGACATGATAATTTAATAAAGACTCTTTTTTCTAG
Seq C2 exon
ATCTGTTTTTAAGCCTTTCATATTTGTGCCACATATTTCACAACTATTGGATACCAGTTCACCAACATTTGAACTTGAAGATCTAGTTAAAAAGAAATCACATTTTAAGCCTGACAGAAGACACCCACTCTACCAAAAACATCAACAGGCATTGGAAGTAGTAAATAATAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144306-SCRN3:NM_001193528:6
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=0.136
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(10.3=38.2)
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:
TTTGAAACAATGATGGAAATTCTTCG
R:
ATTTACTACTTCCAATGCCTGTTGA
Band lengths:
318-1745
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)