HsaINT0086976 @ hg19
Intron Retention
Gene
ENSG00000076826 | KIAA1543
Description
calmodulin regulated spectrin-associated protein family, member 3 [Source:HGNC Symbol;Acc:29307]
Coordinates
chr19:7671362-7673150:+
Coord C1 exon
chr19:7671362-7671457
Coord A exon
chr19:7671458-7673011
Coord C2 exon
chr19:7673012-7673150
Length
1554 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
GACCTGGCTCCCATCTGCAGATC
3' ss Score
10.14
Exon sequences
Seq C1 exon
ACCGTCCGGCGGCTGCAGGAGAAGACCGAGCAGGAAGCGGCCCAGCGAGCCTCTCCAGCAGCCCCTGCAGACGGGGCGGCCCCGGCGCAGCCCTCG
Seq A exon
GTGAGGCCAGGGCATAGAACCGTCAGAAGGATGGGGGACCGGAGATCTGGGAGGGCAGGGCTGTGCTTCCTGGACACTCCTGAAGTGGGGAGGGGGCTAGAGGTGACACACTCTCTCTTTCTTCCCCCCTCTCTCAATCTCTCTGTGCCCTGCCCGTCCCCTGTGCCGGTACCCGCTGCCCTCCTCTCTGCCTCTCTGGCCTCAGTGCCCTACGCGCTGGTACTGGAAGCTGGTTCCTGTAAGTGGGGCTGTCTGTCCGCCCCGTCTGCCTGCCCTGCTTGTAGCTCTGTCTGTCTGTATGTCTGTTTCTGCCTGCCTGTCTGCGCGCCCTCTCATACCTCCCCAAGCTGTGAGCAAAGGAGGTTGGACCCCAGTCCTGGGAGACAGGGAGAACCCCTCTGTGAACCAAGAGAAGGGTAGAATCTCGGCCATTAACTGAGAGGGCAGACCCCTCCCCCAGCGAACTGATGGGTGGGGACGAACTTCCCCTCCCGTTATTCAGAAGGGCAAGCCCTCCCCGTTCCCATTAATGAAGAGGGTGGGACCCCCTGAACCTGTCCCCCTTAGCCGAGGTGGGGAGACCACATAAATTTCTGAAGGGGGGACCTGCAGCCCATCACAAACGTGGATCCTGACCCTAGCAGGCAGGGCACCCTCTGGCCAAGGGGAAGACCCTCCAATGCAGAAGAAGATAGAATAACTTTCCTAACTGAGACCCCCAGCTTCCCTAGAGAAAAATCCCAGCTTTGAAAAGGAGGAGGAGGCCCATCCCTGAAGCTGGAAGTTGAAATTTCTCTCTTCCCTGAATGAGCTGTGTGACCTTGCAGAAGTATCTAAACCTCTCTGTGCTTCATATAAATTACTCCCATAGTAGATAAACAAGGAGGAAGTGGGGGAGGTTTTGGGCTGGCTGGCGTCCCCACCTTTGCTCACTCCTTCCCCCACCCTGGGGCCTGGGTTGGGAGGTTCCCTTCCTGCCTACCCGCTTCCTCTGCATCCTCTCCCCAAGCTGGGGGCCTGGGTCTTTTGTGGGAGGAGGATTCCCCGCATAAGAGGGGGTTCCTACTCTGTGGGGTCCCTTGGGGCTGGGAGGAGCTGGGGTTCGCGAAGCCGGCCAGAGCAGTCAGGGAGCTGGACGGCCGGGGCTCAGGACCAGGGTCAGGGCTACCCCCTCCCCCCCAAGGTGGGCTTGGGGGCCCAGCAGGTCAGCACCCCTCCCCCTTGCTGATGGCTGCTCCTCTCCCCCCAGCACGCAATTGCCTTCTGTTTGAAGGAGTCGGGGAGCAAACCCCCCATGGTAATGTATCCCCCGCCCCGGGGTCCCAGGAGTCCCTGTCCCCAGCCCCCGCTGCTGGCCTGGCTGCTCGAAGACATCTCCTCTGCCTCTTGCTGCTGCCCCTCCCCTGCTCCAGGCTGGCCCCCCAACTCTGTCTCTGGGACCCCCAGCTTCCCGCCCCCTCATGGCGGAAACCCCAGGCCTCCCTGCCCAGCCTGCATGACCGCTGACCCTGGGGGCCAGCCTGGCCACTCACCTGACCTGGCTCCCATCTGCAG
Seq C2 exon
ATCCGATACCGCAAGGACCGTGTGGTGGCGCGACGTGCCCCCTGCTTCCCGACGGTGACCAGCCTCCAGGACCTGGCCAGTGGGGCCGCGCTGGCCGCCACCATCCACTGCTATTGTCCCCAGCTGCTTCGACTTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076826-KIAA1543:NM_020902:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.625 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF119713=CAMSAP_CH=PU(48.2=85.1)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGGAGAAGACCGAGCAG
R:
CCTCAAGTCGAAGCAGCTGG
Band lengths:
222-1776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)