HsaINT0159401 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr19:56004962-56006150:+
Coord C1 exon
chr19:56004962-56005279
Coord A exon
chr19:56005280-56005976
Coord C2 exon
chr19:56005977-56006150
Length
697 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
ACTTACCCCCTGCTCCACAGGCA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GCCCAGCACCTCGGCTGCGCCTGGCCGATGGCCCCCACGGGTGCGCCGGCCGCCTGGAGGTCTGGCACGGGGGTCGCTGGGGGTCGGTGTGTGACGACGCCTGGGACCTGCGAGACGCCGCTGTGGCCTGCCGAGAGCTGGGCTGCGGAGGGGCGCTGGCCGCCCCCGGGGGCGCCTTCTTTGGGGAGGGGTCTGGACCCATCATCCTGGACGACCTTCGGTGTCGGGGAAACGAGACGGCCTTACGATTCTGCCCAGCTCGGCCCTGGGGCCAGCATGACTGTCACCACCGCGAGGACGCCGGGGCCGTGTGTGACG
Seq A exon
GTGAGGGGGTTGTGGTGGAGGACCGGGAGGTGGGCGTGGTGGTGCTTGGAGCGGAGGGGCAAGTTCGGCGGGGGCGGGGGGGTCCCTACGCGCCCTTCCTGCCCTCTCTCCGGACTTTCCACTCCCCCATCTTATTCCCCTCTGAATCCTCACCCTGCGTCACTGGTTCTCAGCTGGGGGTGGCTTTGCCCCCAAGGGGACATTGGACAGTGTTTGGAAACATTTTTGATGGTCACAGCTGGGGGTGGGGGTGCTCCTGGCACCCAGGGGTTAGAGGCCAGGGGTGTTGCTTAGGATCCTGCAGTGCACAGGCCGCCTCCACAGCTGAGAACAGTCCAGCCCCAAATGGAAACAGAGGCGAGGATGAGCCTCAGCCCCGTGGCAGCCCTGGCTGGCCCTGCCTCCTGGCCCCCGGCGGAAGCCAGCCTTCTCCTCTGCATAAGGTCACCCCCCGCTTCTCTGCCACCCCTAAGCTACCATGCCCTCTGCTCTCTCTGTTCCCGTGCTCCGCATTCACACCCCTCTCCCCAGGTCAGGGATGTGGAAAGCGTGGGCTGTGTCTAGGGAGGAGGTTCGGCAGGAAGAGATCTCTGCGTGCAGCTGAGAGGACTGAGGAAGGATGACGCAGGAGGTGGGGGTGCCGGCTCCGGGATGGAGGGTGTGTGTGGGTGGCAATCACTTACCCCCTGCTCCACAG
Seq C2 exon
GCATGCCCCTGGGCTACGTCCCTCCCACGGCCCCCACGGACAGCAACAACTCCACGCCCAGGGAGGCTGCCTCCAGGCCCCCGTCCACCATGACGAGCCAGGCTCCAGGGACGGCAGGCGTTTCACCTCCTCCAGCCTCCCCTACTGTCCTTTGGGAGCCTGGACCGGAAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
-SSC5D:NM_001144950:7
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGCTGGGCTGCGGAG
R:
AGGCTCCCAAAGGACAGTAGG
Band lengths:
347-1044
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)