HsaINT0094904 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:140122604-140124090:+
Coord C1 exon
chr9:140122604-140122793
Coord A exon
chr9:140122794-140123073
Coord C2 exon
chr9:140123074-140124090
Length
280 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CGCTGGCTTCCCTCTGGCAGGAT
3' ss Score
8.66
Exon sequences
Seq C1 exon
ATCTAGTTTCAAGGCTTTGTGGCTGAAACGGGAGCCCACGCCCGCCACAGCTGGCCACCTGCCTCTCTCCTGACTCCCGTGCAAGGCCAGTAATGCAACCCAGGAGGGAGCCGCAGGGCGCCCTGGGTCCCCCACTCCCTTCTCCGGCCACCCCGTGGCTGTGCATAGCTGCCCAGCAGAGCCCATGCAG
Seq A exon
GTAAGAGGCCTGGGCTCAGGTCGGCCAGGAGGGTGGGGGCCTGGAGCTGGGCCAGGGTGGTGCTGCGGGAACAGGAGGCTGCCCGGCTGGTGCCCACATGAACCAGAAGTGTGCAGACCCTGGTTCTGCCTGTGCCCGGTGCCACGCTCCCTCCCAGGTCTGCACGCACCACCCCCACAGACCCAGCGCCTGACCTCTGGGGTGGGCTCCTGGGGCCAGCACCCCATCCAGGCGGAAGGTCCTCGAGGCAGGCTGTCCACCGCTGGCTTCCCTCTGGCAG
Seq C2 exon
GATGCTGCAGCCGGAGGGCCCCCAGGCCTCGGAGGAGGGGGGCCCCCGGAGGAGAGGACAGACTGCATCATCTGCTGCTCGGCCTATGACCTCTCCGGGCACCTGCCCCGCCGCCTCTACTGTGGACACACCTTCTGCCAGGCGTGTGTGCGGCGGCTGGACACACCGGCGCCCGAGCAGCGCTGGATCCCCTGTCCGCAGTGCCGTCAGAGCACGCCCACGCCTCGCGGAGGGGTGGCCATGCTAGACCTGGACCTGGCTGCTTTCCTGGCGGTCAAGGCTGAGCGGGAGCCGGCAAGACTAGAACCCCTGCCCCTCACCTCCCTCAAAGGCAGCGCCATCACTCGGCAGCCAGCTGGGCTGTGCCCTGCCCTGGGACCCCAGCCCCACTTCCCCCAGCCCAGATACTGCTGCTGGGGCTGTGGCAGCCTCTGCTGCCCACCCCTAGGCAGCCCCGAGGTCTGAACTCTGGCCATTCCCACCCCTGCAGGGGAAATGCCTGCCTTGGAACCCCTGACCACACACCATCATGGGTTCAGCCCACTCAGAACAACCTGGCAGTAGCATCCTATACGCAGCTTCGTGTGGCCCAGCAGGGTGGTGTCATCCCAGCCGTGAACATCCCAGGCCACAGCCTAAGGTTGGGGGCTGGGAGGCTCCGCAGGAGGCTGGTGACCTCCCACCTGTCCTGGCCACAATTACCAGACCCCAGACTAGCCCGACCGGATGTGCCTGGTGAGGACACTGCTGTCTGAGTGGGCGGCAAGCCTGGCTTGGGCCTAGACGCAGCGCAAAGGATGGCTCCCAAGAGGATGCGAAGGCGTCCCGGGGGCCTGGGCTGCAGGCTGGAGGGGCAGGGCCGGTCTGGCTATGCCTGGCGGGCTGCCCAGAGCAGGTCTCCCCTCTCCCACAGACGTCCCCGGGGTGTACCGGGAGGGTGGCAAGACTACCTCCTTCCTCCCTGCCCTGCATGGCAGCCCTGTGAATTCACCCACTCAACAAAGCTCATGGAGTTCC
VastDB Features
Vast-tools module Information
Secondary ID
-LOC643596:NM_001190228:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NA
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
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTGGCTGAAACGGGAGC
R:
AGGTGTGTCCACAGTAGAGGC
Band lengths:
308-588
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)