BtaINT0079577 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42926357-42927398:-
Coord C1 exon
chr19:42927149-42927398
Coord A exon
chr19:42926590-42927148
Coord C2 exon
chr19:42926357-42926589
Length
559 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TCCCTATCCCTCACCCACAGGAA
3' ss Score
10.81
Exon sequences
Seq C1 exon
TTACTGCGTGACTTCCCAGACGAGCTGAGAGCTGATATTGCTATGCACCTGAATCGGGAGATCCTGCAGCTGCCGCTGTTTGGAGCAGCGAGCAGGGGCTGTCTGCGGGCCCTCTCCCTGCACATCAAGACCTCATTCTGCGCTCCTGGCGAATACCTGCTGCGCCGCGGGGATGCCCTGCAGGCGCACTACTACGTCTGCTCCGGCTCGCTGGAGGTGCTCCGTGACAACATGGTGCTGGCCATCCTAG
Seq A exon
GTGAGGATCCCACCTCCACCTTCTCCGTACCCTGGAACCTTCTCCCAAAGGCCTATGCGAGGGGCCAGGAATCTAGGGACTGGATAGCTGGTGTTCTGGCAAAGGAGTACGCTCTCTCAGTCCCAGCACCTACCACCATCCCTTTTTGACCATTCCCCTCAGACCCTTTCCTCATCCCATTGGCCATCCCTGAACCCATCAACCCTTCCCCAGTGACTGTCCCCCCAAATCAACTTTCCCACCATACTGTCTCGCAACTCCCCTGACCCTTCTCCATCAACTTTCAACTCCACTGACCCACTACCCTTTAACTGACCCCTCTGGCCATTCTGTATTGATCATCCAATTCCATGGATCATTCCTCCAGCCTTACTGACATCCCCAACTGACTGTCTCCCAACTTCACCAGCCATTCTCCACCGACCTGCCAACTCCATTGATTATTTCCTCCAATTCCATTGACTGACCCACCTTCAACCATCCTTCAAACACACTGACCATCTCTCACATCCACTAATATCCTCTGCCCTAGCTGACTGTCCCTATCCCTCACCCACAG
Seq C2 exon
GAAAAGGAGACCTGATTGGGGCAGATATCCCCGAGCCTGGGTCAGGCACAGCTCCAAGCTGCGTGCTGAAGACCAGTGCTGACGTGAAGGCACTCACCTACTGTGGCCTGCAGCAGCTGAGCAGCCAAGGGCTGGCTGAGGTCCTGAGGCTCTATCCTGAGTATGGAGCTGCCTTCCGGGCTGGCCTGCCCCGGGACCTCACCTTCAACCTGCGTCACGGCTCTGAGACCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:10
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=0.013
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(42.6=47.6)
A:
NA
C2:
PF0002724=cNMP_binding=PD(56.4=67.9)
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:
TCCCTGCACATCAAGACCTCA
R:
GTGACGCAGGTTGAAGGTGAG
Band lengths:
354-913
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development