RnoINT0077857 @ rn6
Intron Retention
Gene
ENSRNOG00000007645 | Kcnj9
Description
potassium voltage-gated channel subfamily J member 9 [Source:RGD Symbol;Acc:621440]
Coordinates
chr13:90706814-90708983:-
Coord C1 exon
chr13:90708883-90708983
Coord A exon
chr13:90707692-90708882
Coord C2 exon
chr13:90706814-90707691
Length
1191 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CTCGGCACACCTTTATTAAGACC
3' ss Score
0.25
Exon sequences
Seq C1 exon
GGGGCCGTGAGAGCCTAGGGAAGGACCCTGGACATCCCGTCTCTCCGGGAAGATTTTAACACAGAGTGCTTCTCAGGGGGAAGAATTCGAAGCAAAACCAG
Seq A exon
GTGGGTTTTGCATGGAATCTGGGCTTTGTGTTGAATGTGCACTTCAGGACATATGGCAGATGTGGGTGGGGTTGCTGTAGGGTAGCGACTGCAAAGCAGGAAACTGGGAGGGGGATCAATGTGGGTGTTTGCTGTTTCGATTGGTCTGATTTCTCATCTCGTAGGAAGCATGGGGCTCTAAGAGATACTAGACTATCGTAACTCTGGATGGCCTGGTGCTTCCTTCATCCTGGCTGTGGGCAATCGACGTCACGTGGCCTCCAGTCTCCCATTGCCAACCCTTTTCAGCATGTCTCCTTTGGGAAAGAGCCCCGGGGGGGGGAAATGGGCTGGTGTCAGAGCACCAGTGACCATGGCGGAGTGGTTAGAATTGCCAGTGGGAATCTCCTAATGCTGGGAACATTCAACCTTTGCACGCTGGAGGTTTTCTGCGCAAAGCCTGCATTTCTTTCTCCCTGGTAAGTCGGATGGAGAAAAGGTGTAGCAGGAAGTGGAAAGAGTGAGGCAGGGAGAAAACTGAGGGAAATGGTCTTGGTGTGACTTCAAAACTGTCTTCAGGTGGGTCTTCTGGTAGGAAGCTGAAGAGTTCTGGGGGAAGGGATAATAGCCGGAGAAAGGTTGTGGAAGTCCTCGTGACAGAGGGAGCTTTGTATAGAGAAGGAACTGCCAAGAAGTCCACCTCTTCAGAACCCCAAATGTCTGATCGGGACGCCTGTGAGGTGCTCCATACACCGGCTTGAGGTAGTGACGCTGAGATCTGTGACATCGAGATCTCTAAAGCCCCCTTCTTACTGAACTATGACACCCAGTTTGTGCTCTTTTCCCTGTGTAACCCTTACAACTTTTTCTTAACCTTTGTTTTTATTTTATGTGAGTGGATATCTACCCTCATGTATGATGTCTGTGCATCACCCCGGGAGGCCAGAAGAGGGCGAGAGACTGGAGTTACAGCCGGTTGTGAGCCGCCTTGTGGGTGCTGGGAATCGAAATCAGATCCGCTGGAAGAGCAACCAGTGAGCCTTTTGAGCCATCTCTCCAGCCGCACCCCTCCTCCCAACTTTCTGAGCTTTGTGGGATGTTAGGGTGGTCGTTCCCAATCCACCACTGGGAGGAAACTGAGGCTAAGAGACAGGAAGGGAGAGACGCTCACAGCATTGGCCGGATCCATCAACTCGGCACACCTTTATTAAG
Seq C2 exon
ACCCCGCAGGATCCCCGCTGCGGCCGCCATGGCGCAGGAGAACGCCGCTTTCTCTCCCGGGTCGGAGGAGCCACCGCGGCGCCGCGGTCGCCAGCGCTACGTGGAGAAGGACGGGCGCTGCAACGTGCAGCAGGGCAACGTCCGCGAGACCTACCGCTACCTGACCGACCTGTTCACCACGCTGGTAGATCTGCAGTGGCGCCTCAGCCTGCTCTTCTTCGTGCTCGCCTACGCGCTCACCTGGCTCTTCTTCGGCGCCATCTGGTGGCTCATCGCCTACGGCCGCGGCGACCTGGAGCACCTGGAGGACACCGCGTGGACACCGTGCGTCAACAACCTCAACGGCTTCGTGGCCGCCTTCCTCTTCTCCATCGAGACAGAAACCACCATCGGCTATGGGCACCGTGTCATCACCGACCAGTGCCCCGAGGGCATCGTGCTGCTGCTGTTGCAAGCCATCCTGGGCTCCATGGTGAACGCTTTCATGGTGGGCTGCATGTTCGTCAAGATCTCGCAGCCCAACAAGCGCGCCGCCACGCTCGTCTTCTCCTCGCACGCCGTGGTGTCTCTGCGCGACGGGCGCCTCTGTCTCATGTTTCGCGTGGGGGACCTGCGATCCTCGCACATCGTCGAGGCCTCCATCCGCGCCAAGCTCATCCGCTCGCGCCAGACGCTCGAGGGCGAGTTCATCCCTCTGCACCAGACCGACCTCAGCGTGGGCTTCGACACGGGGGACGACCGCCTCTTCCTCGTCTCACCTCTCGTCATCAGCCATGAGATCGACGCCGCCAGCCCCTTCTGGGAGGCATCGCGCCGCGCCCTCGAGAGGGACGACTTCGAGATCGTAGTCATTCTCGAGGGCATGGTGGAAGCCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007645:ENSRNOT00000010113:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.053
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0100715=IRK=PU(76.9=91.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGCTTCTCAGGGGGAAGA
R:
TGTCCTCCAGGTGCTCCAG
Band lengths:
349-1540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]