BtaINT0079584 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42935728-42936425:-
Coord C1 exon
chr19:42936192-42936425
Coord A exon
chr19:42935875-42936191
Coord C2 exon
chr19:42935728-42935874
Length
317 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
TTACCTCTCCACACCTGCAGGCT
3' ss Score
9.29
Exon sequences
Seq C1 exon
ACAGCAACTTCCTGCTGGCTAACGCACAGGGCCCACGGGGCTTTCCCATTGTCTACTGTTCCGACGGCTTCTGCGAGCTCACAGGCTACGGCCGCACCGAGGTCATGCAGAAAACCTGCAGCTGCCGCTTCCTGTACGGTCCAGAGACCAGTGAGCCAGCCCTGCAGAGGCTGCACAAGGCTCTGGAGGGCCATCAGGAGCACCGCGCTGAAATCTGCTTCTACCGAAAGGATG
Seq A exon
GTGAGGGGATCCGCCTGCCCTGCCGTCCTGCCCAGACCCCAGACCTTACCCAGAGTCCACTTGGGACAGCGGAAACCTGGTTGCTGGTCCCCACACTGCCACAAGCTGACCGTGTGGCACTGAATGTATCCCTGACCCTCTCTGAGCCATAGTTTTCCCATCAGGAAGGTGAAGGCGACGGCTGACAAAATCTCTGGGCTTTCCAGCTCTAATCCTTGGCCAAGCCCTTTGATTATGCCCAGGAACAAAGAGGGATGAGAGAGAAGGAGATGCCATGGGCTGCTCACCCTCCTCCTCTTACCTCTCCACACCTGCAG
Seq C2 exon
GCTCAGCATTTTGGTGCCTCCTGGACATGATGCCCATCAAGAATGAGATGGGGGAGGTCGTACTTTTCCTCTTCTCCTTCAAGGACATCACTCAGAGCGGAGGCCCAGGACTTGGCCCCCCAGGAGGCCATGGCGATAGTAATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.330
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PU(70.6=97.5)
A:
NA
C2:
PF134261=PAS_9=PD(28.4=62.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAACGCACAGGGCCCAC
R:
TTACTATCGCCATGGCCTCCT
Band lengths:
358-675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development