HsaINT0159403 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr19:56009247-56011779:+
Coord C1 exon
chr19:56009247-56009564
Coord A exon
chr19:56009565-56011182
Coord C2 exon
chr19:56011183-56011779
Length
1618 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CTGCCCCACTCACCTTCCAGGGC
3' ss Score
11.12
Exon sequences
Seq C1 exon
GGTCCCCCCAGCTGCGCCTGGTGGCTGGGCCCAGCAAGTGCTCAGGTCGACTGGAGGTGTGGCATGACCAGCGCTGGGGGACCGTGTGTGACGATAGCTGGGACATGCGGGATTCAGCTGTGGTCTGCCGGGAGCTGGGCTGTGGTGGACCTCAGCAGCCAGACCCTGCTGCTGGCCGCTTTGGCTGGGGTGCGGGCCCCATCTGGCTAGATGATGTGGGCTGTGTGGGGACCGAGGCTTCACTGTCCGACTGCCCTGCTGCTCCCTGGGGAAAGCACAACTGCGCTCACAATGAGGATGTTGGGGTCACCTGCACTG
Seq A exon
GTAAGGAGGCCCTAGCTATCTGTTGACTCCAGGAGGGCTTCCTGGAGGGGAACAGTAACTAACATGGGCACTAACATTGATTGAGTGCTTCCTAAGCCCCAGCCCTGTGCTGGGTGTTTTTGCACATATAACCACATTGAAATCACATAATAAGTCTAGGGTGGTGTGTGTTATGCCCATTTTACTGATAAAGAAGCTGAGGCACAGAGAGGTTGGGTAACTTGCTCAAGATCACACAGCAACAACTAACTGGCAGATCTGGGATTCCCACTCAGAGAAGCTTCTGCTTCCTCTTCCTTCCAGGAATCAAGGAAATTTCCCACTAAGAAAGGAGCTTTAGCTTTCCTACGATGAAAGGAAGCAGGCAGGGCACTGGGAGATGGAAAGAAGCCAAAGTGAGAGCCAGTTAACATAAACTCAGGCAATGCCTGTTATTAAATTGCAGAGGCTGAGCCAGGTGCAGGGTCCTCATGCTGGGCTCATGAATGGAATGAACATGGTCTTGGTCTTTGAATAGCTCACAGCTCATGTAGAGAAATACTCTAACAAATCATTGCAAACCTGTGTGACTCGTTATAGTTTGAGGTTACCAAGACCACTGTCAGACTCAATAATTTGCTAGAAGAACTCTTAGAATCAAAGAATCTGTTACACTCAGCGTTATCGTTTATCACAGTGAAAGGATACAGATTAAAATCAGCCAAGGGAAGAGGCGCCTGAGGCAGGGCTCAGGAGACAGTAGGTGTGAGCTTCCAACTGTCCTGTCCCAGTGGAGTTATGCAGACAGCACTTCATTATCCCAGCAACGAAGTGGGACAACACACATGAGGAACTGCCAACTAGGGAAGTTCCCCCAAGCCTTGGCATCCAGAGTGTTCGTGGGGACTTGGCCACGTACATGTGGCTGACCATAAATCACACTGTTAGCATAGGCGATCTGGCATGGCCCAAGTGCCCCAGGGAAAAAAATCTCTTATCAGGCAAGGTGTTCCAAAGGCTTCGAAGTCATCTCCCAGGAGCCGGGGAAAAGGCGAAACCTTTCTTTGGGCAGGGTTAATCCTTTACTGCACACGTGTGCTAATCAGAAAGATGGAAGATGGAGAGTGGTGTCTCAAAGGATGGAGGCATCACCTCTGCTGGAAGCTACGGCTCTTCCCTCTGTCCCCGTCTTCCTGAGGGCCACGGGGGCACCACAGAAGGATTCTGAGTTCGGGAGTGGCCTGTCGGACCTGGGTACCCCACTGGTGGTCAGTAAGAATTGACAGGGAGGTAGGGAGACCTGTCAGAAGGTATAGGAAATGAGGCCCTGACTCAGAGCAGAAGCTGAGGAGATGGAGAGGAGAGGTCAGGTGTGAAAGGGTGAGGGGGTCAGTTATGTCCAGATTGTAAATGCCAAGAAGGCGGGGGCAGTGTCGGGTTTGGCTTGCCATAGGCTACCCGAGGGTCTAATATGGTGTGTGGCTCATAGGAGGTGCTCAATAAATATTTGTGACAATAAATGAATGAATGATGAATGAATGGGAACTGGGTGAGTGACTGGAGAGAAGGAGGGGCCTGGGTAGATGATCTTGTCATCATGGTGTCTCTGTCTTCTCTTCCTGCCCCACTCACCTTCCAG
Seq C2 exon
GGCCCCCAGGCCTGGACTCCATCTCAGACCCCTTCAGCTGGAGCTGGATTCCTGGACTGGGGAGAGATCGGGATGCCTGGCTCCCGGGAGAGCTGGCCACCAAGCCCTCTGCAAGTGTGACTGCCAGTGTTCTGGAGAAAACAACCACGAAGGCCCCAGGGAAAATGCCTAAGAGTACTAAGAAGTGGGTGACAAAAAATGCAAAGAGACCAACCACTCAACCCCCAGTGATGCCAACCACGAAACACTCCAGGGCCCAAAGCCCCCCAGACCTAACCTCACAGACCACTGCAGCACTGACCACTGAGGCCTCCCGAAGACCTACCTCTGAGTTTACCAGAAGGCCGACCACGGAGGCCCCCCAGAGATGGACCTCTCACACCACTGCCACGCTGACCCCTCAGGCCCCCCGAGAACGGACCACTAAGACCATGGCAATGCTGACCACTCAAGGCCCCCAAGAAATGACCTCTGAGTCCACTATCAAGAGTATCCCTCAGGCCTCCCTGGAGCCATCTGCTGAGATCCCAGAAGGGTCTCCAGAGTCACCCAAAGACCCGGCCCCCTCTCCCAGTGTTAGCACCACTGGGGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
-SSC5D:NM_001144950:9
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGGATGTTGGGGTCACCT
R:
CAGAGGTAGGTCTTCGGGAGG
Band lengths:
357-1975
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)