BtaINT0079587 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001195 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr19:42933929-42934635:-
Coord C1 exon
chr19:42934392-42934635
Coord A exon
chr19:42934087-42934391
Coord C2 exon
chr19:42933929-42934086
Length
305 bp
Sequences
Splice sites
5' ss Seq
TGGGTTAGA
5' ss Score
-0.23
3' ss Seq
ACAGCTTCTTGCATCCCCAGATA
3' ss Score
8.26
Exon sequences
Seq C1 exon
AACGTGTTTGAGCCAAAGCCATCAGTGCCCGAATACAAGGTGGCCTCCGTGGGGGGGTCCCGCTGCCTCCTCCTCCACTACAGCGTCCCCAAAGCCGTCTGGGATGGCCTCATCCTCCTTGCCACCTTCTATGTTGCGGTCACTGTCCCCTACAACGTCTGCTTCTCGGGTGATGATGACACCCCCATCACGTCCCGACACACCCTTGTCAGCGACATCGCCGTGGAGATGCTCTTCATCCTGG
Seq A exon
GTTAGACCCTCTGCCCCACGTACCCTGGTGGGTGGGCTGGAGGGACCCACTCACCCAAGCCTCGTTTCATCCTGGGCTTGCCAGATCCAGATATTTAGAGCCCACCCATTTCTGGGTCTTTATGTCCTCATGGTCCATGAACCCTACCCCTGATTCTTGGAGCCTTCAGCCTTTAGACCTCTCCTCTTTTAAGAACCAGTCTGAAGCCCAATCTATCATCCCCATCCCTGCCTCCAACACTATTCTGAGTCTTACCCAAGGTACCTTGGCCAAGGACCCTTAGTAACAGCTTCTTGCATCCCCAG
Seq C2 exon
ATATCATCCTGAACTTCCGCACCACCTATGTGTCCCAGTCTGGCCAGGTGGTCTCTGCTCCGCGTTCCATTGGCCTCCACTATCTGGCCACCTGGTTCTTTGTTGACCTTATTGCTGCTCTACCTTTTGACCTGCTTTACGTCTTCAACATCACCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001195:ENSBTAT00000005335:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(5.7=14.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(24.8=100)
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:
CGTGTTTGAGCCAAAGCCATC
R:
TCAACAAAGAACCAGGTGGCC
Band lengths:
348-653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development