BtaINT0079603 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016613 | KCNH6
Description
potassium channel, voltage gated eag related subfamily H, member 6 [Source:HGNC Symbol;Acc:HGNC:18862]
Coordinates
chr19:48508072-48510066:+
Coord C1 exon
chr19:48508072-48508265
Coord A exon
chr19:48508266-48509978
Coord C2 exon
chr19:48509979-48510066
Length
1713 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
ATGCTCTTGTTCCCCACAAGGCA
3' ss Score
4.53
Exon sequences
Seq C1 exon
GAAAGAATGACATCTTTGGAGAGCCCGTCAGCCTCCATGCCCGGCCGGGCAAGTCCAGCGCAGATGTACGGGCCCTGACCTACTGTGACCTGCACAAGATCCAGCGGGCAGACCTGCTGGAGGTGCTGGACATGTACCCTGCCTTCGCAGACAGCTTCTGGAGTAAGCTGGAAGTCACCTTCAACCTGCGGGAC
Seq A exon
GTGAGTCTGGGATGGGTGGCCCGGGTTGGGGGTGGCCCTCGGCCAGCCTGTAATGGGCCATGGCCAGTCAGCCTGCTGAGCGCTTGGGCTGCTTGGCTGGAGAGGACCCGTCTGACCGCTTCCCTTCTTTTCAACCCCCGCTCTTCATCCTTTGTCATAATCACTTCTGTGCCTCCCATGGCCAACATAATGCTAAGTATGAAGATAGCTACCAATTACGGAGCACCAACTATGTGGTAAGCGCTGGGCTCCTTCTACACTAATCTCATTTAGTCTTCCTGCAGGTGGTGTTAGTATCCCCATTTTCCAGATGGGGAAACTGAGGGTCCTAGCAGACAAATGACTAAAGCCACAGTCACACAGTAAATCATATAGTCAGTGGCGCAGCCAAAATGGGACTCAAGTTTGTGCATCTCCATAGCCCAGGCTTTTCCCACCACATCCTTCCAAGCTGCAAGGTGGGGGGGGTGGGGTGGAGGGTGGAGGGTGGGGGCAGGCAGCAGCGTCTCCCATCCATGAGCTCATGGTCCAGGTCCCAGAGGTGTAAGCAGTGATAGAGCAATCTCTCCTCTCAAATTTATTACTCAGTGGAGGAGATTATAATAACTCAAGAAGAAGAAAGAAAAAAAAAGAAAGAGCTAAATAGTTCTCTCTCTTTTTTTTTTTTTGGCCTTACCAAGCAGCTTGTGGGATTTCGGTTCCCCGATCAGGGATTGAACCTGGGCCGCAGCAGCCCAGAATCCTAACCACTAGGCCACCAGGGAACTCCCAAGAGCTCCATAGTGAAGAACCAAGGCAGTCTCAAGGGTGTGCAGTGAGACCAAATATCTGTGGAGCTCAGGGTGGCCAAGGCGTGGGATAGCCAGTATAGAACAGAAGTGCCCAGAAGGGTCTGTGTGCAGGGGAGGGCTGGGAACCAGCTAGTGGGAAGGAGGGGGCAGGCGCGGCTGGCAGGGGCCACAGTGGCTGAGGCCCGGGCACTGAGCCCCCACCCCTGGCCTCAGGCGGAGGTTTCTGCTGGCCCAGCCCCGCACCCAGCATCTGGAGGTGGAGCTGAGGCAGGTTTACCTGCTCCGGATGGCCCTCCCCACCCTGCCCTCTGCTGTCCTCCCCTCCCCAGGCTCTCCCCTTCCCGCCTGGCCTGTCTAGGAGGCCTCTTGTGAGGACTCTGCCTTGGTGGGCGGCGGGGGGCAGGGGGTGCCCAGCTGCTAGGAAGCATCAGGTGGCCCAAGTGCTCAGTGGCTGGACACTCAAGCAAGAGGGCTGTGGTATCCATGGCCTGGGACATCTGCAGCCCCTGGGTGCCCCCAAGTCCTATTACCAGGGGGGTGGGCTGCCAAGGGCATGGATGGGGCACCCCCGAAGGGATTGGGACTTCCAGACTTCCACCCCTCAGGGGGAATTGTCACGTTGGCCCAGGCTGAGGGCGGGGGTCCCAGAGCCCTGAGGAAAAGGAAAGAGAAAGCTCCCCTGCCTCCCCCACCCCCACGCTGCTGCTCAAGGCAGCCTCTCGCAGGACTCCCTGGGGTCTGCCTGGCTCCAAGCCCCTGGGCATCCCTGCCAGTCCACGCAGGAGAGGAGCTGCTGGGAGCATGCTGGGGGTGCCCAGCCGCCTGCAACCACCCTCCCCTCATTGCCACGAGGGTGGGGGAGGGGAGAGAGGCCCAGTCCCGGCTGTGGTCCCCGTTACTTGATGCTCTTGTTCCCCACAAG
Seq C2 exon
GCAGGCGGTGGTCTCCAGTCATCACCCCAACAGGCTCCAGGCAGTCAAGACCACCAACAGGGCTTCTTCCTCAGTGACAACCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016613:ENSBTAT00000022102:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAATGACATCTTTGGAGAGCCC
R:
GACTGGTTGTCACTGAGGAAGA
Band lengths:
278-1991
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development