HsaINT0084337 @ hg19
Intron Retention
Gene
ENSG00000089558 | KCNH4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:HGNC Symbol;Acc:6253]
Coordinates
chr17:40311749-40314339:-
Coord C1 exon
chr17:40314266-40314339
Coord A exon
chr17:40312454-40314265
Coord C2 exon
chr17:40311749-40312453
Length
1812 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
ACTCGATGTGTTTTCAACAGATC
3' ss Score
9.62
Exon sequences
Seq C1 exon
GGACCAGGCCCAGCCCAGAATTGGCCAGTGAGGCTGAGGAGGTGAAGGAAAAGGTTTGCCGGCTGAACCAGGAG
Seq A exon
GTGGGTTGGGGCTGGCTCAGAGACGTGCCTGATATAACAGCATTTCAGACCCTACACGTGGCTCACTTGAGGTCAGGAGTTTGGGACCAGCCTGGCCAACATGATGAAACCCTATCTCTGCTAAAAAATACAAAAATTAGCCAGGCACCTGTAGTCCCAGCTACTCTGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGCGGAGGTTGCAGTGAGACAAAATTGCGCCATTGCACTCCAGCCTGGGCGACAGGGCAAGACTCTGTCTCAGAAAAAAAAAAAAAAAAAAAAGAGAGAGATATTCACGCTAGCTAGATGACCTTGGGCAAGTCCCACAACCACTCTGAACTTAAACCTTGGGCAAGTCCCACAACCGCTCTGAACTTAAACTTCCTCATCTAAAATGGGGAAATAGTAATATGTGCTTCCCAGAGTTTTAAGGATGAAATGAGAGTGCATATGTGCCTGGTCCAATCCCTGGCATGTCATAGGCACTCCGTACCAGTTGGTTTCCTTCCTCCCCGACTGGCTCAAGTTTCCCAGCCTGATAAGAGCATCTCTTCTCCCTCCACCACTGTAGGACTCTTTCCTGCCCAGGCCCTACCTCTTTCCCTTACCCCAGCCGTGGGTAATGAGTGCTAAGCAGATGCAGGGGCAGGGGACAGGGAGGCTGAGAGGCCTTCAGGCCTGGGGGACCTGGATCCAGATGTCTGAACTCTGTCCAGGAAGAACCTAGATTCTATATGCTGAGGCTCAGCCTCTGCCTCCTCCCCAAGGGATCTCAGAGTTGTCACCGCAGAGCAACCAGGCCCAGCCCCTGGGAGCCAGCCTTCCCTGTGTTCTGATAAACATCGGGCATCCCAGAGGGGCGGTGCCTGGGCTGTTTCAGGCCCTGGGGCCTGAGCGGGGCTGGCTCTTGTTCAGCAAGCTTGAGGGCAAGTCCGCTCAAGGCCTCAGGCATCCCTCAATTCTAGGCCAGTGGTTCCCAAACAAGTATCTGTCAGAACTACCTGATAGGCCGGGCGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTAAGGTGGGTGGATCACGAAGTCAGGAGATGGAGACCATTCTGGCTAACACGGTGAAACCCTGTCTCTACTAAGAATACGAAAAAAATTAGCCGGGCGTGGTGGCACACACCTATAGTCTCGGCTACTTGGGAGGCTGAGGCAGGAGAATCTCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCTGAGATCGCGCCATTGCACTCCAGCCTGGCAACAGAGTGAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAAGAACTACCTGACAACCTATTAAATGCAGATTTCTGGGCCTCTTAGGATTGGGAATGTCTGGGGCGGAGCCCAGAAATGTGCCTTTTCAAAAGTTTCTTAGTTGATTCTCTAGTCGCTGAAGTGTGAAAAGCACTGATAGAGACCCTTGAGCTTGTGTGATGGGATCAGCTGAGAATAATAAGGCTGTCACTTCACAGATGTGTGGCCTCTTTGAGCACATTTTTTAACATCTTGGGAAAGCTCGCGCGCGCGTGTGTGTGTAGGGGAGGAATAGCAATATCTGCTGCCCCAAATCCTTTCTGGAAAGAGACTGGGGCATTTTCCATCTAGGCAAAAATAACCCTCATCCTGCCTTTTTCCCAGGGTGGCCATGAGCAGAAAGTGGCTGCGAAAGAGCTTTGTAAACTGGAGAGGGGGGTGCACCTTGTTATTACTGTGGCACCTGTGAAACAACTCGATGTGTTTTCAACAG
Seq C2 exon
ATCTCTCGTCTCAATCAGGAGGTGTCTCAGCTTAGCCGGGAGCTGCGGCACATCATGGGCCTGCTGCAGGCCAGGCTGGGTCCCCCAGGCCACCCAGCAGGCTCCGCTTGGACCCCAGACCCTCCTTGTCCACAGCTGAGGCCACCATGCCTCTCTCCTTGTGCGTCCAGACCACCACCCAGCCTCCAGGATACTACGCTTGCTGAAGTTCACTGCCCAGCCAGTGTGGGGACCATGGAGACAGGGACTGCGCTCCTGGACTTGAGACCTTCCATATTGCCCCCCTACCCCTCAGAGCCTGACCCTCTGGGACCCTCTCCAGTGCCAGAGGCCTCACCCCCAACCCCAAGCCTCTTGAGGCACAGTTTCCAGTCCAGGTCAGACACGTTCCACTGACCCTGGCCCAGGGCCCAGGCCTGTCTGGGGTGGGCGCTGCCGCTCACCACTCAGGGAGGACCTGGGCCCCTTGGCTTCCTGCCTTGGGGTCAGCAGCCACCAGCTGGCCTGGTTGGCTCTGGATTTCTGGACTTTTTAATGAAGCGTGGTTACCTCTGACGCTATTCCCTTTTCCAAGCCTTCCCCAACCTCCCCCTCTGTGAGGGGAGCCACCTGAGGGCTGTGGAACCCAGCAGGCATGAGATGAACCGCAGTGCCCATTGGGCTGGGCAGATGAGATCCTACTTTCTCCCCAGGACCTGGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000089558-KCNH4:NM_012285:15
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=0.992
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=PU(50.0=84.0),PF0148612=K-box=PU(41.9=72.0)
A:
NA
C2:
PF104734=CENP-F_leu_zip=PD(45.2=14.4),PF0148612=K-box=PD(53.5=17.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAAGGTTTGCCGGCTGAAC
R:
CACTGGAGAGGGTCCCAGAG
Band lengths:
351-2163
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)