HsaINT0088494 @ hg19
Intron Retention
Gene
ENSG00000127528 | KLF2
Description
Kruppel-like factor 2 (lung) [Source:HGNC Symbol;Acc:6347]
Coordinates
chr19:16435651-16436843:+
Coord C1 exon
chr19:16435651-16435809
Coord A exon
chr19:16435810-16436026
Coord C2 exon
chr19:16436027-16436843
Length
217 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CATTGCCCTGTCGCCCGCAGCGC
3' ss Score
10.78
Exon sequences
Seq C1 exon
GCCCGCCCGCGCCCCGACCAGCCCGGCCTCGGGCAGCCACTCACCGGTGTCCCCGTCCGCGTCCTTTCTCCCCGGGTCCCGGCCATGGCGCTGAGTGAACCCATCCTGCCGTCCTTCTCCACTTTCGCCAGCCCGTGCCGCGAGCGCGGCCTGCAGGAG
Seq A exon
GTGAGGGCGGCGGGGACGGCGGGGCGGCCGGGACCGTGGGCGGCGGGCTCGGGGTAGTAGAACGTGGGCTGCGGGGTGACAGGACGCGAAGGCGGGGACTGCAGACTCAGGAGAGGAGGATGCGGGCCACGGGGATCGCGGACTTAGGGTGGTAAAAGGCAAGCAGCGCCCCCCGAGCCCCGCCGCCCGCTCACGCCCATTGCCCTGTCGCCCGCAG
Seq C2 exon
CGCTGGCCGCGCGCCGAACCCGAGTCCGGCGGCACCGACGACGACCTCAACAGCGTGCTGGACTTCATCCTGTCCATGGGGCTGGATGGCCTGGGCGCCGAGGCCGCCCCGGAGCCGCCGCCGCCGCCCCCGCCGCCTGCGTTCTATTACCCCGAACCCGGCGCGCCCCCGCCCTACAGCGCCCCCGCGGGTGGCCTGGTGTCTGAGCTGCTGCGACCCGAGCTGGATGCGCCGCTGGGGCCCGCACTGCACGGCCGCTTTCTGCTGGCGCCGCCCGGCCGCCTGGTCAAGGCCGAGCCCCCTGAAGCGGACGGCGGCGGCGGCTACGGCTGCGCCCCCGGGCTGACCCGTGGACCGCGCGGCCTCAAGCGCGAGGGCGCCCCGGGCCCGGCGGCTTCGTGCATGCGAGGTCCCGGGGGCCGCCCCCCGCCGCCGCCCGACACACCGCCGCTCAGCCCCGACGGCCCCGCGCGCCTGCCCGCGCCCGGTCCGCGCGCCTCCTTCCCGCCGCCTTTCGGTGGCCCTGGTTTCGGCGCGCCCGGGCCCGGCCTGCATTACGCGCCGCCTGCGCCCCCAGCCTTCGGTCTCTTCGACGACGCGGCCGCCGCCGCGGCAGCCCTGGGCCTGGCGCCCCCCGCCGCCCGCGGTCTCCTCACGCCGCCTGCGTCCCCGCTGGAGCTGCTGGAGGCCAAGCCAAAGCGCGGCCGCCGCTCTTGGCCCCGCAAACGCACCGCCACTCACACCTGCAGCTACGCGGGCTGCGGCAAGACCTACACCAAGAGTTCGCATCTGAAGGCGCATCTGCGCACGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127528-KLF2:NM_016270:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.240 A=NA C2=0.817
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=PU(35.7=3.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCGCTGAGTGAACCCAT
R:
GTCGCAGCAGCTCAGACAC
Band lengths:
292-509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)