HsaINT0086972 @ hg19
Intron Retention
Gene
ENSG00000076826 | KIAA1543
Description
calmodulin regulated spectrin-associated protein family, member 3 [Source:HGNC Symbol;Acc:29307]
Coordinates
chr19:7682212-7682547:+
Coord C1 exon
chr19:7682212-7682324
Coord A exon
chr19:7682325-7682428
Coord C2 exon
chr19:7682429-7682547
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCCACTGCCTCACCCTCTAGGTC
3' ss Score
11.85
Exon sequences
Seq C1 exon
GGCTCCCTCCCCGTCAGGTCTCATGTCCCCAAGCCGCCTGCCTGGAAGCCGCGAACGGGACTGGGAAAATGGCAGCAATGCCTCCTCCCCAGCGTCAGTGCCCGAGTACACAG
Seq A exon
GTAAGCAGGGGCTCTGGGTGATGTGAGGAGCAACAGGCACCCTCCTCCACAGCCCCTGCTCATTCCTGCTGCCCCCCACCCCCTCCCACTGCCTCACCCTCTAG
Seq C2 exon
GTCCACGGCTGTACAAAGAACCCAGCGCCAAGTCCAACAAGTTCATCATCCACAATGCCCTATCACACTGCTGCCTGGCGGGCAAGGTGAACGAACCGCAGAAGAATCGCATTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076826-KIAA1543:NM_020902:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF086836=CAMSAP_CKK=PU(0.8=2.6)
A:
NA
C2:
PF086836=CAMSAP_CKK=FE(30.0=100)
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:
CTCCCCGTCAGGTCTCATGTC
R:
ATGCGATTCTTCTGCGGTTCG
Band lengths:
219-323
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)