GgaINT0142782 @ galGal4
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr27:4852277-4852798:-
Coord C1 exon
chr27:4852555-4852798
Coord A exon
chr27:4852435-4852554
Coord C2 exon
chr27:4852277-4852434
Length
120 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
CTGTGCTCCCCCTGGGGCAGACA
3' ss Score
6
Exon sequences
Seq C1 exon
AATGTGTTTGAGAACAAGCCCTCCATCCCCGAGTACAAGGTGGCCTCGGTGCAGAAAGCCCACTTCATCCTGCTGCACTACAGCATCTTCAAGGCCCTCTGGGACTGGCTGATCCTGGTGGCCACTTTTTATGTGGCTGTCACTGTCCCCTACAACGTCTGCTTCACCAGCACGGAGGACAGCCTCTCGGCCGCACGCAGCACCATCGTCAGTGACATCGCGGTGGAGATGCTCTTCATCCTGG
Seq A exon
GTAGGTCTGTGCCCGCAGATGAGCCCCCAGCTGGGGCACGAGGATGTCCTTGGCTGGGACCCAGCCCAGCCCCCCAGCTGCAGTGGGGCACTCAGGGCCGCTGTGCTCCCCCTGGGGCAG
Seq C2 exon
ACATCATCCTGAATTTCCGGACGACGTATGTGAGCCACTCAGGCCAGGTGGTGTATGAGCCCCACTCCATCTGCATCCATTACGTGGCCACCTGGTTCTTCGTGGACCTGATTGCCGCGCTGCCCTTCGACCTGCTCTACATCTTCAACGTGACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084125=Ion_trans_N=PD(87.1=74.4),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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATCCCCGAGTACAAGGT
R:
CGTCGTCCGGAAATTCAGGAT
Band lengths:
250-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]