HsaINT0084312 @ hg19
Intron Retention
Gene
ENSG00000055118 | KCNH2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:HGNC Symbol;Acc:6251]
Coordinates
chr7:150642049-150644142:-
Coord C1 exon
chr7:150643965-150644142
Coord A exon
chr7:150642603-150643964
Coord C2 exon
chr7:150642049-150642602
Length
1362 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATGCTCTGTGTGTATTGCAGGTT
3' ss Score
10.91
Exon sequences
Seq C1 exon
GCTGGAGACCCGGCTGAGTGCAGACATGGCCACTGTCCTGCAGCTGCTACAGAGGCAGATGACGCTGGTCCCGCCCGCCTACAGTGCTGTGACCACCCCGGGGCCTGGCCCCACTTCCACATCCCCGCTGTTGCCCGTCAGCCCCCTCCCCACCCTCACCTTGGACTCGCTTTCTCAG
Seq A exon
GTAAGCTCCAGCCCTGCTTCCTCGATGTACCGTGACCCGCTTGTTCCCCGATTCCAGCCCAAACCTGCTTTGCTGCCTTTCTGCTGGGCTCTGTGGCCCAGCCTCCCTGAACCTTGTTCCTGCCCTCCTCCCACCCCTGTCCTCCTGGAGGAAGGCTGCTTCAGGAGCTGCAGGCTCAGGGTAGGGCAGGAGAGTCCCCCGTCCAAAGCCCCTAGACAGCTGGGTGCAGGGAACCTGTAGGCTAAGTGGCCCGCAGCTTCACTCCCCTAGTGTCCACAGCCTCCACCGCCAGGCCCCGGAGCATCGCCTGAAGAGCCAGCTCCAACGGTGGTGCCTGTCTCACGGCCACGGGTGGTCTCCAAGAACTGACTGAGCCCGAGACGTGGCGGTGGAGGCTGCATACCAGAGTATCTAGGGACAGGGTCCCGGGTCCCTTCTGTGAGTGACACTCCCTGGTCTCACCGTCCTGCCCATCCTTGCCCTTGGCAGTGGCTGTCACAGGGTCATCTTGAGGGTGCTTGGCATTTCCCAGGGTGCAGAGGCCAAGCCTCCAGGGGAGGACTTCCTGGGCCTGCTTTGCCCCCTCTGCTAGAGATGGGCCTTAGTTGCCCCTTGTCCTCTCCTGGGTGGACCTGCATGTTCCTGGCCTCTGCAGGATGGCGGTGTCTGTGTCAACCTCCGCGTCCATGGTGGGGACTCCTCTGGCTGCCAGAGGCGGCCTGGGATCTGCTCCCTCCCCACTTCCCTTGGCATCCGCTCCCCCCTCCCATATGCTGCCTGCTCCTGTTTGCAGACACGAGGGCCCACGTCAGCAAATGTGCCAGTCTCCCTTCGCAGCCGCCCCCGCAGAGCTCTCACCAGCAGACGCTCAGTACCCACAAACCCCTCCCGCCTGCCCCGGCCCTCTCCCTGGCCTTCAGATGCCTGGCCGCCAGCCTGCCTCTGTTTCTAGGTCCCCGAGTTCTTTCTGGATTGCGGGAAGGAATCTTGTCTCTTTTTCTGTCCCAGCTTCTGTCCCAACACAGAGACTGCTTGTTCCAGGTTGGGTTGGGCTCAGCGGCCACATTCCCTCGGGAAGAGACAGGGGCCTAGGGTTTTCCCTGCTCCCAGCTCTCTTGTTTGGCTCCTGCTCTCAGAGAATGCCTTTCTCTACTTCCCACCTTGGTGCCTCCCCTTGGTGGCCCCTGTCCTGCTCTCGCTGCCTTGGCTCTTGTCCCCTCCAGCTTCTCTGCCCACCTGACTCTCCTCTTGGCCCTCCTGTCCTCCCGTCCATCCTCTGTCCCCGGGTTCTCCTGCCCCTTTCCCTCCCCTTCCTCCTCCTCCATGGCCTCTTCGCCTGCCCATGCTCTGTGTGTATTGCAG
Seq C2 exon
GTTTCCCAGTTCATGGCGTGTGAGGAGCTGCCCCCGGGGGCCCCAGAGCTTCCCCAAGAAGGCCCCACACGACGCCTCTCCCTACCGGGCCAGCTGGGGGCCCTCACCTCCCAGCCCCTGCACAGACACGGCTCGGACCCGGGCAGTTAGTGGGGCTGCCCAGTGTGGACACGTGGCTCACCCAGGGATCAAGGCGCTGCTGGGCCGCTCCCCTTGGAGGCCCTGCTCAGGAGGCCCTGACCGTGGAAGGGGAGAGGAACTCGAAAGCACAGCTCCTCCCCCAGCCCTTGGGACCATCTTCTCCTGCAGTCCCCTGGGCCCCAGTGAGAGGGGCAGGGGCAGGGCCGGCAGTAGGTGGGGCCTGTGGTCCCCCCACTGCCCTGAGGGCATTAGCTGGTCTAACTGCCCGGAGGCACCCGGCCCTGGGCCTTAGGCACCTCAAGGACTTTTCTGCTATTTACTGCTCTTATTGTTAAGGATAATAATTAAGGATCATATGAATAATTAATGAAGATGCTGATGACTATGAATAATAAATAATTATCCTGAGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000055118-KCNH2:NM_172057:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCACATCCCCGCTGTTG
R:
AGGAGCTGTGCTTTCGAGTTC
Band lengths:
342-1704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)