RnoINT0005130 @ rn6
Intron Retention
Gene
ENSRNOG00000049045 | AABR07045032.1
Description
NA
Coordinates
chr20:32038235-32039795:-
Coord C1 exon
chr20:32039696-32039795
Coord A exon
chr20:32038419-32039695
Coord C2 exon
chr20:32038235-32038418
Length
1277 bp
Sequences
Splice sites
5' ss Seq
TTGGTAACT
5' ss Score
4.27
3' ss Seq
GTCTCTGGTCTGCTCTCCAGGAA
3' ss Score
9.23
Exon sequences
Seq C1 exon
GACCTGGACGTGGACATCCTGGCCTTGGTTAACGACACTGTGGGGACCATGATGACTTGTGCTTATGATGATCCCAACTGTGAGGTCGGCGTTATCATTG
Seq A exon
GTAACTCAGTGGACTCGGAGGTGGGAGGGGGTGGGGCTGGGGCTGAGTTTGAGTAAAACCTAAATACATATAAAGGGTGCTGCCACTTTTCTGCGAGCAACACGGGGAGATGAGAAACCTGCATCTACATCCATCCTCCCTCCCTCTGTCCATCTTCCCTCCCTCCATCCTCCTTCCCTCTGTCCCTCCATCCTCCCTCCCTTTGTCCATCCATCTTCCCTCCCTCTATCCTGTTGTAAAAATATTTAATAAATCCTGGCGTGGGGTTCCTTCCCGCCTTACTGGTTTATGTTCCTGAATGAAAGACACATGGCCTTTCTATGTTAATAAGCCTTAAGCAGCCCAGTAGCCGGGCAGCTGCCTACCCTCCATGCGGTTAGACTCTGTTTTCCCATCGGTAACCCCCAGTTATCCTATTTCCTAGGTTCCGTCTGGACTGCTTGTAACTCCAATTGGGCAGCTCTCTGGGCCACGTTCTCTTAGCCCTTAGACCATGATGGCTCTCCTTGCTTCTCTATCCCATGACTGCCCTCTTCAGTCTCCCTTCCTCCTCCTCCCCCTGGGGGGGGGGGGGAGGAGGAGGAGGGGAGGAGGGGGGAGGAGGAAGGAGGGGGAAGGAGGGGGGAGGAGGAGGGGGAAGAGAGGGGGAGGAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCCAAGTGCTGAAGTGGGGGGGGGGGTTGTCCTGGAAACACGTTAGATGCTTCAAGCTGTCTGTGGTCAGACCCCTTAGGAAAACCAGGCCAGGAAACCCCTTTTAGAAAAATCAGCAGAGGGGTTGGGATTTAGCTCAGTGGTTAGAGCGCTTGCCTGCAAGCAGCCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAGAAAGAAAAGAAAGAAGAAAAGAAAAATCAGAAACTGGCCCCTAGCCCTGGCAGAGGAATGGGAGGCAGGAGTGGCTCTTTGAGAACAGAAATGGTGGCACACACGGCGATGAAACCCGCCCCCCAACAAACACACACACACACACCACACACACAACACCTGTAATCCAGACAGGAGGATCTGATTTTTCTAAAAGGGGTTTCCTGGCCTGGTTTTCCTAAGGGGTCTGACCACAGACAGCTTGAAGCATCTAACGTTTCCAGGACAACCCCCCCCCCCCACTTCACACTGGGACAGACATGTGCCAATCATCTGCTGTTGTCCCCTCTGTCTCTGGTCTGCTCTCCAG
Seq C2 exon
GAACAGGCACCAACGCGTGTTACATGGAGGACATGAGCAACATCGACCTTGTGGAAGGGGACGAGGGAAGGATGTGCATCAACACGGAGTGGGGGGCCTTCGGGGACGATGGCACTTTGGAGGACATTCGCACCGAGTTTGACAGAGAGTTGGACCTGGGCTCACTCAACCCCGGGAAGCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049045:ENSRNOT00000074989:6
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:
PF0034916=Hexokinase_1=PD(11.2=67.6),PF0372711=Hexokinase_2=PU(3.5=23.5)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(26.5=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:
GACCTGGACGTGGACATCCT
R:
CTTCCCGGGGTTGAGTGAGC
Band lengths:
279-1556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]