HsaINT0093029 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr22:42486937-42487604:+
Coord C1 exon
chr22:42486937-42487185
Coord A exon
chr22:42487186-42487300
Coord C2 exon
chr22:42487301-42487604
Length
115 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
GTAAACCAACTCTTCCTTAGCGC
3' ss Score
3.93
Exon sequences
Seq C1 exon
GCATGCTCATCTACAGAAACGCCGCTTGGCCTTTGGACTACACCATCTGTCGCTCGCTCTAACGAGCCGGCGTTGCCGCCAGGGGACGCTCGGGCCGCAGGAGGTCGCTGGGTCGTGAGCTGGCGCCGGGGACGCCGAGCGACTGCGGGGTTTCCCTCAGCGTCCTGCTATCCGGCTGCCCGCCGCGCTCCTTGGTAGTGTCCGTGGGCGCGCAGGCCTTGAAGAACCTCCTCGTGGCGGGACCCCGAG
Seq A exon
GTAACTGCTGAGGCAGATAATGGCGCCTGGGCTGCGGTGGGGCTTGTCCTGCCGCCTGGCGGCTTTCTGCAGGGCCAGGATATACTTACTTTTCTGTAAACCAACTCTTCCTTAG
Seq C2 exon
CGCAGGAGAGGTGTCAAAGAGCTGGCGCGTCTCCAGAGCCCCGGGAGGAAGGCTGTAACGGCAGCCCCATCGTAGACAGGGACATTCGCATCCCGAGCCCTGGATCTCTGAAAACCAGCCCAGAATTTGGAAGCTGGAAGGAACTTTAGATCGTCCATTCTGAGTGTCTCTCTTCGCTGGCGTTTTCCCACTGAGGTTATGTAAACATGAAGAGGAGCCTACAAGTGTCAAGGAAAAAACGACAGCTAACCACAGGGCAGGCCATGGGCAAGATATCTCAGTGTTCTCCGCTCTCATAGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
-LOC100132273:NR_034118:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
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
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTACACCATCTGTCGCT
R:
GCCAGCTCTTTGACACCTCTC
Band lengths:
242-357
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)