RnoINT0005132 @ rn6
Intron Retention
Gene
ENSRNOG00000049045 | AABR07045032.1
Description
NA
Coordinates
chr20:32034512-32036148:-
Coord C1 exon
chr20:32035993-32036148
Coord A exon
chr20:32034746-32035992
Coord C2 exon
chr20:32034512-32034745
Length
1247 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGC
5' ss Score
6.16
3' ss Seq
CACTCTTGTCCCCTGCTCAGGAG
3' ss Score
6.84
Exon sequences
Seq C1 exon
GTTCGAGAAGATGATCAGCGGGCTGTACATGGGGGAGCTGGTCAGGCTCATCTTGCTGAAGATGGCCAAAGTTGGTCTCCTGTTTGGGGGTGCAAAGTCCTCCGCTCTCCACACAAAGGGCAAGATTGAAACACAGCACGTGGCTGCCATGGAGAT
Seq A exon
GTAAGCTGCTGGGGTGTCCCTTCCTTCTTGCCTCTGTGAAGGGCTGGAGGTCCCTCCTTGCCTCTGTGAAGGGCTGGGGTGTCCCCTGCTGCCCTGAGTCTGTGGAGGCCTGGGTTGGTGGCCACAGTGCCATGCACTCAGATGATGGAGCAGACCTTCTTCCCTCACAGGGACTTTCAGTCCCGGCCTTGGCTGTCACACCCTTTGGGTCACTAGCCAGGGACTGCACTGTCAGAAAGCCACCTACGTGCCATGATTTCCTGTCTTCTTCCTCCCTTGAAGGGTGACTAGTAATAATTTGGCAGTCACTGATCCCTTGGGATTGGAATCAAGTCCTGGATTCTTACCCTGAATCGCACATTTGCGTATAGTTTTGCTTATGATCTGGTTGTAGCCTTGTACTCTGTACGGTGCAGAGTCCCTGAGCCAGGCTGTAGAACCTGAGTCTTTTCCCTGGGCTCCTGGTATGGCTGCCTTCTGATCTGCTGATCTGAGTCTTTATACGCAAAGCCCCGCAGCGGCGTGAAGAAAGAGCTTAGTGCAATCTGACCAGAAACCTGCTCCCGAGGCTTGGAACCCCCAGCTCTCCCCTGAGCTTCGCAATCAGTCTAACGTGCAGAATCCATGTCTGCACAGAACTTGGCAGGGATGAGCCCTGAGCGGCAGTAGAATGTGACGTGCTTAAAAGTGTGGACTCTGGGGGTTGGGGATTTAGCTCAGTGGCAGAGCGCTTCCTAGGAAGCACAAGGCCCTGGGTTCCGTCAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAGAACCAAAAAAAAAAAAAGTGTGGACTCTGGGGTTAGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGCAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAGAAAAAAAAAAGTGTGAGCTCTGAAATTTAACTGCGGGAGTCCAAGCCACAGCTCCAGGACTTAGGTAGGTGCTTTGTGAGCAGAGACAAGCCACTCACCCTCTGCCTCAGACCTCTCGCCTGGACCATCTCCTAAGAGCTCCTTCCCTTGGGATTCTTGTGAAGATCGGAGGAGTAGGCTGGCGAGTCAGAGCCTTAGCACGCGTGCGGTGGCTCGTAGTAGCTGCTCTGCTCACTGCTGATGCTGTCTTTGGTTATATTGTGTTCTTATGAGAGGGTGCACACAACCCACACAGCATGGGGAAGTGTGGGCCTCTCACTCTTGTCCCCTGCTCAG
Seq C2 exon
GAGTAAAGAAGGCCTGGCCAATACGAGAGAGATCCTGGTGGATTTGGGCCTGGACCCCTCTGAGTCAGACTGCATCGCTGTCCAGCACGTGTGCACCATCGTCTCTTTTCGCTCGGCCAATCTCTGCGCCGCTGCGCTGGCAGCCATCTTGACTCGCCTCCGAGAGAACAAGAAGCTGGCCCGGCTCCGCACCACGGTGGGCATGGATGGAACCCTCTACAAAACACACCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049045:ENSRNOT00000074989:8
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=0.165
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(22.6=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(33.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGGTCAGGCTCATCTTG
R:
GTAGAGGGTTCCATCCATGCC
Band lengths:
342-1589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]