RnoINT0000823 @ rn6
Intron Retention
Gene
ENSRNOG00000046602 | AABR07006030.1
Description
NA
Coordinates
chr1:214665338-214666740:+
Coord C1 exon
chr1:214665338-214665599
Coord A exon
chr1:214665600-214666625
Coord C2 exon
chr1:214666626-214666740
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCATAGTGGCTCCCACAGGGT
3' ss Score
4.36
Exon sequences
Seq C1 exon
AAGCCAGATCCCGAAACCATGTCTGCAGCACCTGGGGTGACTTCCACTACAAAACTTTTGACGGCGATGTCTTCCGATTCCCTGGTCTCTGTGATTACAACTTTGCTTCTGACTGCCGAGACTCCTATAAGGAATTTGCTGTGCACCTGAAGCGGGGCTTGGACAAGGCTGGGGGTCACTCCAGCATAGAGTCCGTCCTGATCACCATTAAGGATGACACCATCTACCTCACCCACAAGCTGGCAGTTGTGAATGGGGCCAT
Seq A exon
GTGAGTGGGATTACTACTCTTCTCTTATGTCCCAGCAGCTAGGGGGATGTTTCTGGCTCCTCAGAGCAACTTTCCCCCTGAACATTTTGTATAACTTAGCCAGCCTCCAGGATACCCTCTTCCTCTCTGGTACATGTCTAAGTTTGAGGTTTGAGCTAGGCCATGGATTTATTCAACAAACACTGAGGAGATCCCCTCTGTAGACCAGGGGTCTTGGGTATCTTGTGAGTCCCCTGTAGATTTTCCTTAGTGGGGTCATATGGGATAGGTTGGTGGCTGCCAGAGCATGTCCCCCAAGACTAAAGTTGCAGAAGCTCAGAAGGGAGAGGCTGCTTGCCCTGCCCCATTGTTCCCTGGTATTGTCTCTGCAACAATGAGGTCCTCTTAAATGCATTCCTGTCCTGCAGGTTCACCTCCTGGGGATTTGCTCTTTTCCTGCTTCGGGGTTTCTGTGTCCTGCATGGGGCTCTCCCAGCGTTCCCTTACCTTGCTTGTTTGGTCTGTCTGGGTTATGCTGTCATGTGTGGGTTAGGGCTAGAGGCTCAGGGGCTGTTGTATGGCAATTGCAGGCCAGCACAGGCATGGGATGGGGTCTTGGCATAAGGGCAGCCCCAGGATGATGGGCTGGGTGGGAGTTGAAGGTCCTACCCTGGCAGATTCTATGAGGGATAACCTAGAGAGGGTTGGGGGGTCTCAGTCCTCAAGATATCCCAGATCCACTGCCTTTAGGACTCCTGGGAAAGCCTCTACTCTGGTCTCAGAGAGGGCACAGGAAGGAAATAGGGTGAAGGGCCTGGCCCTGCCCCAAGGAAATCCACCTAGCCCAGGACAAGGGCTTTCTGGCCTCCTCTCTGAGCTTGGCTCAGATGAAAACAGACAGGCCATGTAAGGAGTCAGCCTGGGACTGACTTCACCCAGATAATGCCCATGGCCTCAGCACCGTATGGACAGCAGAACCCTCATGAGGACAAGTGGGTGGGTTCTGGGATGATGGATTGGTGAGTGACCCCATAGTGGCTCCCACAG
Seq C2 exon
GGTCAGCACCCCACACTACAGCTCCGGGCTGCTCATTGAGAAGAACGATGCTTATACCAAGGTCTACTCCCGTGCTGGCCTCTCCCTCATGTGGAACCGGGAAGATGCCCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046602:ENSRNOT00000075002:2
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:
PF0009420=VWD=PU(52.7=89.8)
A:
NA
C2:
PF0009420=VWD=FE(25.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACCATGTCTGCAGCACCT
R:
GCATCTTCCCGGTTCCACATG
Band lengths:
358-1384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]