RnoINT0000880 @ rn6
Intron Retention
Gene
ENSRNOG00000055996 | AABR07006032.1
Description
NA
Coordinates
chr1:214735565-214736019:+
Coord C1 exon
chr1:214735565-214735820
Coord A exon
chr1:214735821-214735966
Coord C2 exon
chr1:214735967-214736019
Length
146 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TAAAAGCCCTTTACTTACAGCAC
3' ss Score
4.82
Exon sequences
Seq C1 exon
AAAAACCTACAATTACCTGTCCCAAGTCGATGACCTATCAATACCATATCAGCACCTGCCAGCCCACCTGCCGGTCTCTGAGTGAGGAAGATGTCACCTGCCATGTCAACTTCATCCCTGTGGATGGCTGCACCTGCCCCAAAGGCACCTTCTTGGATGATTCGGGCAAATGTGTACAGGCCACTAGCTGTCCTTGCTATTACAAGGGATCCCCAGTTCCCAATGGCGAGTCTGTGCATGACAACGGGGCCATTTG
Seq A exon
GTAAGACTCTTAGTCCTGGCAGAGTATGTTTCCAGAGGACCTTGTCACCTTGTTCCCATGCACCTGTAATCATGCAAACAAGGAGGACATGGTGGGGATTCACAGGGCCTAGAGTGGATGATATTCTAAAAGCCCTTTACTTACAG
Seq C2 exon
CACCTGCACCCAAGGAGCACTAACTTGTATTGGAGGTCCTGTCCTGACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000055996:ENSRNOT00000085159:16
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=67.4)
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
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCGGTCTCTGAGTGAGG
R:
CTGGAGTCAGGACAGGACCTC
Band lengths:
242-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]