BtaINT0079635 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012798 | KCNH8
Description
potassium channel, voltage gated eag related subfamily H, member 8 [Source:HGNC Symbol;Acc:HGNC:18864]
Coordinates
chr1:138582405-138583713:+
Coord C1 exon
chr1:138582405-138582604
Coord A exon
chr1:138582605-138583463
Coord C2 exon
chr1:138583464-138583713
Length
859 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TCTTTCATCTTCTCTGGCAGCTT
3' ss Score
9.4
Exon sequences
Seq C1 exon
CCTTGATGCACGCCCTGGTGTTCGGAAACGTGACAGCGATCATCCAGAGGATGTACTCCAGGTGGTCCCTCTATCACAGCAGAACCAAGGATCTGAAGGACTTCATCCGTGTCCATCACCTGCCCCAGCAGCTCAAGCAGAGGATGCTGGAGTATTTCCAGACAACCTGGTCAGTCAACAATGGAATAGATTCCAATGAG
Seq A exon
GTAATGTGAATTTCTCCTGTTGACGTTTTCAGGCAGAAAGCACGTATTCTAAGGTAAAAGCAAGCGCTTTAGTGCAGGTCTAAGAAGTGAAGCACACACCTACCAACTTCTTTATCTCTTTGCGTTTAGCCTCTCATGACCCCCGCAGGGGTTCTTTTGTCTGGTCTTGCTTACGTTTCCATGATGTCACTGTGGACTGGCCAGTGTTTCACAGTAGCTTGCTACTTCGGTCAGTCAGGTAGACATATTTTCATGTGAGATGACCCTCTTTGAAGGAACCAATTGTTACGACAGTTGAATGGTATAATCATGGGCTATTAGATTAATCAAGCTAAAGTTTACCTTTAGATCCAACAAAGTAAAAAAATGCATTTTTCTGCAAACATGTTATGTTTGGGCTTCCAGAAACACCCTGGACCGCCGCTGTCAGTATCCTATAAGCCAAGCAGCCATCCCATCAACCTGCCAACAAAGCCAGCCATCGATATTTTTAAGTGCTTGTTTGGTTTTTCCTCTCTTCAGATGATCAGGACAGCCAAGGAAACTCTAGAGGGCCTAAACTCCAAATCTTCTGTCCCAAGTCAAGTGTCTTTGTGAGAAGCAGGCCACAAGGAACAATATGTTTCATTCTAGAGTCTTTTATTAATTGATTGTCTTTCTCCAGACTTATTAATAGCTGATGATTCAGGAGCACACGGCCTGGGTCACAGTCACAGAAATCCGGGATTATTCGTACATGTAGCTTCCTCTTCGTCCTCTGACTGGTCAAACAGTGGGGAAAGGTCCCTGTGGTCCTACAGTCGGTCAGCGACACAGGACTGCTCCCCAGCTTGGTTCCTTCTTTCATCTTCTCTGGCAG
Seq C2 exon
CTTTTGAAGGACTTCCCAGACGAGCTCCGCTCCGACATCACCATGCACCTGAACAAGGAGATCTTGCAGCTGTCCCTGTTCGAGTGTGCCAGCCGGGGCTGCCTGCGGTCTCTGTCTCTGCACATCAAAACCTCCTTCTGCGCCCCTGGGGAGTACCTGCTGCGCCAGGGGGACGCTTTGCAGGCCATCTACTTCGTGTGCTCGGGCTCCATGGAGGTTCTTAAAGACAGCACGGTGCTGGCCATCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012798:ENSBTAT00000017003:6
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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.7=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.6)
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:
AGGTGGTCCCTCTATCACAGC
R:
GAGCACACGAAGTAGATGGCC
Band lengths:
344-1203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development