RnoINT0005500 @ rn6
Intron Retention
Gene
ENSRNOG00000028662 | AABR07049821.2
Description
NA
Coordinates
chr5:139862930-139864393:-
Coord C1 exon
chr5:139863664-139864393
Coord A exon
chr5:139863026-139863663
Coord C2 exon
chr5:139862930-139863025
Length
638 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TTCTTTAACTCCATAAGCAGGAT
3' ss Score
4.37
Exon sequences
Seq C1 exon
GTGAAAGGGACCAGGTGGGCTTCAGGGCCTGAGGGAAAGGGTTAGAGAACCAACAAAAACAAATGCTGTTTTAAAATGCCACAGTGAAACCTAGTACTGTATATGCTAATTAAAACTTTTCTGAAGAAACATAAGGATGTGTAGGATGTATAGGTATTAGGGTAAGTGCTAATGCCGAAGAACCTCCTTCCATGCCCCTCACCTCTGCTCTCCTCTCCTCCTGCTCTCCCTTACCACAGAGCCGCCTCCCTCCGTGCCGCTCTTCCTCCTCAGACAGATGTTCACCCAGGCCTTTGGAACATTCTGGAATACCCTTCCCCGAGATTTCCACATGGCTCTCCCCCATCGAATCACTGCCTCTAGCCAAACTATGTTTCGGAGAACCCTGCTTTCTTCAGCACCCCAAAACAAGATCACCTCAGCTCTCACTGGTGGTTTCACTTCTTCATGTTTCTTTTCTGTCCTGTATATGTAATTACTTATAGCAGCCTCTAGAAAATCCTGGTGAAATTGGTGTGGAATCTCTGAACTTGGAATACTGCCAAGGCTCCTTAGACTTTGACCGGGGTGGACTCTGACTCCTCTGACTGTTTGATATTGTAGGAATTGTTGACTTTCAAGGACATAGCTGTGGACTTATCCCAGGAGGAATGGGGGCAACTGGCTCCTGCATACCGGGATTTGTATCGGGAGGTGATGCTGGAGAACTACAGAAACCTGGTATCAGTGG
Seq A exon
GTAAGGACTAGCCAGCTGTTCTTATTTGATTTTTGTTGTTGTGATAAAAATTACCCCACAAAAAGCAAATTATAATCTGGGGGGAGTTGAGGCAAGAACTTAAACATCACATCTTCAGTAAAGAGCAAAGACTGGAATGCATCCTTGTTTGCTGGCTCTCAGGTAGCTTTTTCTACTCCAACATAGTCCAAAGCCCTAGACTAGGGAATGGCACCACCCACAGTGGACTGGGGTCTTAAGATGCCTCCCACACCAACTTGAATCTAGACAGTTCTTCTTTTAAGAATCTTCTCAGGTGATTCAAGGTTGTGTCAAGTTGACAATTAAAAATTATCCACCACAGCAGGTGTCCTCTACAAACCTGGCCATTGTAAGAGAGCCACTGTTGCTAAACTGTCAATGTCATGGATTTGTTGGATTTTGGCTGTGGGTTCTGTATTAGTGCTGTCTTGATCCTTTGAAGACTAGGGTGTAACGACCTTCCTTAAGGGACAGCTTTATTTCATCGAGCTAGAAAAGAAAGTTGTGACTCTGTTGGTTATTAGAAAACCTGACTAGCAGAAGCTGGAACAAAACTCTGGGGCAGTTCTTCAACAGCAGCATCAACATTCATAATTTTTCTTTAACTCCATAAGCAG
Seq C2 exon
GATATCAACTTTCCAAGCCTACTGTGATTTCCCAGTTGGAGAAAGGAGAGGGACCATGGACGGCAGAGAGTCAAGGCCCAAAGGATTCCATTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028662:ENSRNOT00000030016:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.667
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCTCAGCTCTCACTGGTG
R:
TGGGAAATCACAGTAGGCTTGG
Band lengths:
351-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]