HsaINT0016680 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:134357758-134358294:+
Coord C1 exon
chr9:134357758-134357949
Coord A exon
chr9:134357950-134358096
Coord C2 exon
chr9:134358097-134358294
Length
147 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
CTCTCTGCTTTTTTATCAAGGAT
3' ss Score
7.94
Exon sequences
Seq C1 exon
CAGGGTTTTAAGAGCAGCCAGGGAGATAGTGGCGTTGACTTGAGTGCCGAGTCTCGGGAGTCGTCTGCGACCTCCTCGCAGCGCAGCTCCCCATATGGGACTCTGAAGCCAGAGGAGATGAGCGGGCCCGGCCTGGCGGAACCCAAGGCCGACAGCCACAAGGAGCAGGCTCCAAAGCCATCTGAGCAGAAG
Seq A exon
GTAACCTGGACGTTCCAGTCACAGTGGCCAGGGCCTGGGTGGAAGGGGCCATCGTCTCATCATCTTCCTCAATTCCTGGGACAGTAGAAGCTAGAGAGTGTGGTCATTCCAGTCTGTGTGTCTCCACCTCTCTGCTTTTTTATCAAG
Seq C2 exon
GATTCAGAACAAGGCTCTGGACAGAGCAAGGAGCACAGACCAGGACCCATCGGCAACGAGCGTTCTCTGAAAAACAGAAAGGGCTCGGAGGGGGCCGAGCGGCTGCAAGGGGCTGTCGTCCCGCCTGTTAACGGGGTGGAGATTCACGTGGACTCCGTGCTGCCTGTGCCACCCATTGAATTTGGAGTCAGTCCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
-BAT2L1:NM_013318:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
AGAGCAGCCAGGGAGATAGTG
R:
TTTCAGAGAACGCTCGTTGCC
Band lengths:
254-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)