BtaINT0079578 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42925666-42926589:-
Coord C1 exon
chr19:42926357-42926589
Coord A exon
chr19:42925705-42926356
Coord C2 exon
chr19:42925666-42925704
Length
652 bp
Sequences
Splice sites
5' ss Seq
AACGTATGT
5' ss Score
7.69
3' ss Seq
AACCCCTTGTGTCCCCGCAGGGC
3' ss Score
11.85
Exon sequences
Seq C1 exon
GAAAAGGAGACCTGATTGGGGCAGATATCCCCGAGCCTGGGTCAGGCACAGCTCCAAGCTGCGTGCTGAAGACCAGTGCTGACGTGAAGGCACTCACCTACTGTGGCCTGCAGCAGCTGAGCAGCCAAGGGCTGGCTGAGGTCCTGAGGCTCTATCCTGAGTATGGAGCTGCCTTCCGGGCTGGCCTGCCCCGGGACCTCACCTTCAACCTGCGTCACGGCTCTGAGACCAAC
Seq A exon
GTATGTAGACCCCTATGGCCTCCACCTCCTCCGAGGTCACCTCCTTCAAAGTAGACCCTCCCTTAGCCCCAGAGAGAGCCTCATGAATTCCTTCCACCCTGAAAACATCATCTCTCAACGCTGGGCACCCCTTCCATTGCCCCGCCATACTTAACATCTTCAACCCACTGACCCTACGCCATGGACCATCACCCAACCCCATGGGTCATCTCTCACCAACTCTACTTCCAACTCAACTGACACACCTCCTGTTGGTCCCCCTTCTGCTGAATCCAGACTCCTCAAAGGACCCCCACTTTGAAAACAATCCCCTCTGTGTGCTCCTCCTCCATCAATTCCCTCCCCCCTTGGACTGGTCTCCTCCCCTGGGGCTTCCTCTGCTCCACTCAGCAAATGTTTCCCGGGCCCATTTTTGGTTTAGGCTCTGGGCCAAATCTGTAGTTTACACCCTAGACCTTGGTCTTTTACTGCTTTTCAGACTTCTGTTGCCACTCAGGAGTTGTCTGAGTCGGAGTTGGGGGTATCTCTGACTCAGTTTCACAAAAAGGCCTCACATTCTCCAACCCCACTGTTCTGATGGGCGGGACTAGGAGGTGCTGCCCTGGGGGAGTGGGGAGGTATGAGTCAGCCAGAACCCCTTGTGTCCCCGCAG
Seq C2 exon
GGCCTCTGCCGCTTTTCCCGGTCCCCTCGCCTCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.846
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(56.4=67.9)
A:
NA
C2:
NO
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:
AAAGGAGACCTGATTGGGGCA
R:
CTGGGAGAGGCGAGGGGA
Band lengths:
270-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development