HsaINT0148715 @ hg19
Intron Retention
Gene
ENSG00000156304 | SFRS15
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:19304]
Coordinates
chr21:33067126-33068534:-
Coord C1 exon
chr21:33068426-33068534
Coord A exon
chr21:33067294-33068425
Coord C2 exon
chr21:33067126-33067293
Length
1132 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
ACTTTCTTTAAAAATGAAAGGTT
3' ss Score
2.56
Exon sequences
Seq C1 exon
TGGCTTTCCTGGAGATGGCATGCAGCAGCCAGCATACACACAGCATCAAAATATGGATCAGTTTCAGCCACGAATGATGGGAATACAACAGGATCCAATGCACCATCAG
Seq A exon
GTACAAGCATTTTTCTTGCAGTTCAAAGAAAGATCTATTCATTATAGAGCGTATGGTTTGCATTCCACAGAGCACTCTGCAGCTATGTAATTGGCTAAGTCGTACTATATCTCTGATAAAAGCTGTTGAACACGTAACTATTTTGAGTTGCTTTTTTCTGTAATTAAAACAAGGATGCCAAAATCACATGCTCATATTTTAATAATAGGCATTTTTTTAGTTAAAATAATGTAGAGATTACAGTTCTATTTGAAGAAACCGACCTGTTTAGTTATACAGCTTTTTCCCTTGGAAGGGCCTTCCTTCTGTATTTTGTGTGGTTAGATACTTTAGAGGGCTCTGAGCTCTGAACATTCAGGAATATAGTTTGAAATCCGCAATAAAAGGAGCATACATAGCACACTGGAGAGTTGCAGGAAGTTAGTAGAGATAAATTTGTTCCAGTAAATTCTCTCATTGAGTGTTTCTTAAACTTGATTCTGTATCTAAATTATGGGGATGGGGTGGGAAGCATTTTTGTTATTTCAAGTGTTTAACAATTACTGAAAGTTCATAAATAATTTAGAAAGAATACTTAAAGCATTATATTTATAGTTTTATTTGTGTTTAAACTGACATGCAGAAATATGTTAGATTGTAGTTTACTTTCATTATTATTATGATACTTTATTTGAAACTCTAAAAGTTGGGTATGTTAGTTGAAATTCCCCCTTGGTTATTTTTTTTTAAAGTAAACCTAGAAGTCATTGCTTCTAGATAGCCAGTTTTCCTCCCAAAAGGCTTAATTGTCTTTAAAGCTGAAAAGAGACCATTTGCAATGGAGTACTTCTGACTTGAAGTTCAGTTTATCACATTGCTTCCTTATGTAAATGAAGGTATTTCTTTAAATATTTAAAACTAAACCTGTGTGTTCATAATTTTAAAAAGAGTTACAGGATTTTTAACCTATATACTTGGTATGTAACAATTCTTGCGTGGAAATTGTACATATGGAAATTGTTAAACAATGTTGAATGTCGTTGTAACTTTTCCTTGATCAAACTTTATTGAGGATATTTTAGTTTTATATAACTAAAGGTTTTCCAAATTATTTTGATAGCTATTACTCATACACTTTCTTTAAAAATGAAAG
Seq C2 exon
GTTCCACTTCCTCCTAATGGACAAATGCCAGGATTTGGACTTCTTCCTACACCTCCATTTCCTCCCATGGCTCAGCCTGTGATTCCTCCAACTCCACCAGTGCAGCAGCCTTTCCAAGCTTCTTTTCAGGCACAAAATGAACCACTTACACAGAAGCCGCATCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304-SFRS15:NM_001145444:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF086487=DUF1777=PU(4.8=10.7)
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:
GGCTTTCCTGGAGATGGCATG
R:
ATGCGGCTTCTGTGTAAGTGG
Band lengths:
270-1402
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
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)