BtaINT0079583 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42922699-42923768:-
Coord C1 exon
chr19:42923636-42923768
Coord A exon
chr19:42923095-42923635
Coord C2 exon
chr19:42922699-42923094
Length
541 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
ATGTGATGTGTTTTCAACAGATT
3' ss Score
9.61
Exon sequences
Seq C1 exon
GGATCTCAAAGCCACATCCACAGCGCAGCCAGGCCCAGCCCTCGGGAATGGGCCTTCCCTGGGTTCTGATAAACATCAGGCATCCCCAGGGGTGCACCTGGGTGGGGCCAGCCCTGGTTCTGTGGGATTCAAG
Seq A exon
GTCAGTCTTGCTTCAGCTGGCAGTTCTAGACCAGTGGTCCCCCAGCTTCAGAGACCAACATTATCCAGAGAACCTGTTAAAATGTGGATTCCTGGGCCTCACCCAATTTGGAATGTCTGGGGTGGGGCCCAGAAATCGGCATTTTGACAAGTTTTTCAGTTGATTCTGTAGTTCCTGAAATTTGAAAAATGCTGAATAGACACTTGAGCTCCTGTGATGTATCACCTGAGAGTAAGCCTGCGTCTGTCACTTCACAGCTGTGCAGCTTCTTTGAGCACATTCTTCTACATCTTATAAAAGTGTGTGCGTGGCAGGGGTGAGGGGGTGGGAATAGCAATAGCTGTCATCCCAAATCCTTTTTTGGAAAGAGGCTGGGGTATTTACATCTAGACAAAAATAACCCCTGTCCTGTCTTCTTCGGAGGGTGGCCACGAGCAGAGAGTGGATATGAAAGCACTTTGTAAACTGGGGAGGGGAGCACGCCTCGGGGGGGTATTGACTGTTGTGGCACCTGGGAGACAATGTGATGTGTTTTCAACAG
Seq C2 exon
ATTTCCCGTCTCAACCGAGAAGTGTCTCAGCTTAGCCAGGAACTTCGACACATGATGGGCCTGCTGCAGGCCAGACTGGGTCCCCCGGGCCACCCAACAGTCTCAGCTTGGCCCCCACACCCTCCTTGCCCACTTCAGAGGCCTCCGTGCAGTTCTCCTTATATGTCCGGACCACCACCTGGCCTCCACGATACTACTCGGGCTGAGGTCCACTGCCCGGCCAGTGTGGGGACAGCAGAGATGGGGGCTGCCCACCCTGACCTGAGACCCTCTGTACGGTCCCCCTACCTCTCCGAGCCTGACCCTCTGGGACCCTCCCCAGTGCCAGAGGCCCCGCCTTCGAACTCAAGCCTCATGAGGCACAGCTTCCGGTCCAGGTCAGACACGATCCACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCAAAGCCACATCCACAGC
R:
TGGACCTCAGCCCGAGTAGTA
Band lengths:
342-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development