GgaINT0123761 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8918729-8919215:-
Coord C1 exon
chr17:8919035-8919215
Coord A exon
chr17:8918894-8919034
Coord C2 exon
chr17:8918729-8918893
Length
141 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GCTGTGCCCTCTGCTTGCAGTTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
CACCTGCGGCATCCAGCATTTGGAGAGAGCAGGAGAGAAGCTCTCCCTCTTCAAGTCCTTCTACTTTTGCATCGTCACCTTTTCCACTGTGGGCTATGGGGATGTGACACCCAAGATCTGGCCTTCCCAGCTCCTTGTCGTCATCATGATCTGTGTTGCGCTGGTTGTGCTGCCGCTGCAG
Seq A exon
GTGAGAGTGTGGCCATGGAAGGGTGCAGAGCCTGCGCTGGGCATGGTGTTGTTCCCATGTCCCTGGCACTGTCAGCCACGCAGTGAGGGCACCGAGGGCATTCTCTGGTGCTGGGACACCAGCTGTGCCCTCTGCTTGCAG
Seq C2 exon
TTTGAGGAACTTGTCTACTTGTGGATGGAGCGGCAGAAGTCGGGGGGCAACTACAGCCGGCACCGTGCCCAGACAGAGAAGCACGTCGTGCTGTGCGTCAGCTCACTCAAGATTGACCTCCTCATGGACTTCCTCAATGAGTTCTATGCCCACCCACGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0788511=Ion_trans_2=FE(75.0=100)
A:
NA
C2:
PF0788511=Ion_trans_2=PD(10.0=14.5)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGAGAGCAGGAGAGAAGC
R:
CACGACGTGCTTCTCTGTCTG
Band lengths:
251-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]