BtaINT0079586 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42934392-42935594:-
Coord C1 exon
chr19:42935470-42935594
Coord A exon
chr19:42934636-42935469
Coord C2 exon
chr19:42934392-42934635
Length
834 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CACCACCCCTCTCCTCTTAGAAC
3' ss Score
8.76
Exon sequences
Seq C1 exon
AAAACTCCCTTGGCAGGAGGGGAGCCAGCTCAAGACTTCGATCTGCCAGGAGGCAGAGCCGTACTGTCCTACACCGACTGACCGGCCACTTTGGCCGCCGGGGCCAGGGAGGCATGAAAACCAAT
Seq A exon
GTGAGTCCAATCTCCACCCCAGCATCTCCCAGACATGTTTCTGAGGCACCCTTGCTACTGTGTCCCTGTTTCCCTGTCTGTCCAATCTTCCTCCAGTGGCTTGTTCCTTTGTATGCCGTTCCTCACATATGGCTCTCTGCTCTATCCTGTGTTCCCCCACGTCTCCTTTCATCCCCCTCTTCCTTGCTTCCTTGTGTTTGACATTACCCTGCTCTGATGATGCCACAAAGGTGGGGCTGTAGCAGCAATTACATCACCCACCTTTGGGTCTTAGGGTTACCTCGTGGGGGGTATGAAACCACGTTAGTGGTCCCAGGGTGAAAGCCCCCATTGGGGTCTGACATCTGACCCTGTGTACAATTCCTAGGACCCTGATGAATCCATGGGTCTCCAACCTGAGCAGACTGTTATGGCAACAGGGAATGGGGTATGCCATGCCAGCCTCCCCTTGCCCCTGGGATATACTTATCCTCCACTGCATCCCTAGAACCCAAGAGGATCTTGAGGGAGAAGCTAGTGACCCCTCAAGCTAGGGCATTGTCTGACTGGTCATAATCACCTTCTCAAGAAGGGTAAAGGTCAAACCTTAGAAACCTTTCGCACACACACATACACACACACAAAATGTGAGTGATTCCAAAGAGCAGTAAGTTAGCAGAGGAAGGAAGTGTCAGGTGGCAGCTGCCAAACCCCATCTCCTGCACGTTCTACATCCTCTTGTGGTTGTGCTTGCAGTGCCCACTCCACCCCTTTCCCCATTCCTTACCTGTCCCTCCCCCAGCTTTGGCTCCTCTTTCCCCCAAGTGTCCCCAACCACCACCCCTCTCCTCTTAG
Seq C2 exon
AACGTGTTTGAGCCAAAGCCATCAGTGCCCGAATACAAGGTGGCCTCCGTGGGGGGGTCCCGCTGCCTCCTCCTCCACTACAGCGTCCCCAAAGCCGTCTGGGATGGCCTCATCCTCCTTGCCACCTTCTATGTTGCGGTCACTGTCCCCTACAACGTCTGCTTCTCGGGTGATGATGACACCCCCATCACGTCCCGACACACCCTTGTCAGCGACATCGCCGTGGAGATGCTCTTCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.560 A=NA C2=0.030
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(5.7=14.6)
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:
AAAACTCCCTTGGCAGGAGG
R:
GATGTCGCTGACAAGGGTGTG
Band lengths:
344-1178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development