GgaINT0123760 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8919035-8919736:-
Coord C1 exon
chr17:8919642-8919736
Coord A exon
chr17:8919216-8919641
Coord C2 exon
chr17:8919035-8919215
Length
426 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCCCCTGCTTCTCCCTGCAGCAC
3' ss Score
12.51
Exon sequences
Seq C1 exon
AATGACCTGCACCGTGCCATCCAGAGGACCCAGTCTGCCATGTTCAACCAGGTGCTCATCCTCATCTGCACCCTCCTGTGTCTCGTCTTCACTGG
Seq A exon
GTGAGTGTTGCACCTCTTGCCACCCAAAGGCCTCTCCTCCACTGTGCATCCCAACAGCTGGTTTAAGAGGTCCGTGGGGCCCTGCTAATTAACCAGGCCCTTCTCCCTGTGCTTTGAAACCAGCACCTTCCATACTGCAGCCCTGCTCCTGGCTTTGCACTGAGCTCTGAATCAGTTTTCCTGATTGGTCTGAATTTGGAGCAAATAACACCAATTAAATCACCAAGAGGACAGGAAATTAAGCTTTTGGGCTCATGAGCCTTTGACTATAAAGGCAGTCTTCTCAGATGAGTGGTGAATGCAATTTCTGGGCTCTGCAGGACTCCTCATCCCAACGCCTTGTTCTCGCTGCAGCTATAGATGCATTTCTTTGACACTCATGCTTTGGAGCCATGAGAGCTCATGGCCCCCTGCTTCTCCCTGCAG
Seq C2 exon
CACCTGCGGCATCCAGCATTTGGAGAGAGCAGGAGAGAAGCTCTCCCTCTTCAAGTCCTTCTACTTTTGCATCGTCACCTTTTCCACTGTGGGCTATGGGGATGTGACACCCAAGATCTGGCCTTCCCAGCTCCTTGTCGTCATCATGATCTGTGTTGCGCTGGTTGTGCTGCCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0788511=Ion_trans_2=PU(12.5=31.2)
A:
NA
C2:
PF0788511=Ion_trans_2=FE(75.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGACCTGCACCGTGCCAT
R:
CAACCAGCGCAACACAGATCA
Band lengths:
262-688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]