RnoINT0009617 @ rn6
Intron Retention
Gene
ENSRNOG00000049855 | AC142181.2
Description
NA
Coordinates
chr4:70743490-70744252:-
Coord C1 exon
chr4:70743999-70744252
Coord A exon
chr4:70743627-70743998
Coord C2 exon
chr4:70743490-70743626
Length
372 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTCTTTTTCTTTCCTCACAGTCA
3' ss Score
10.79
Exon sequences
Seq C1 exon
CCGCATCCAAGTGAGACTGGGAGAGCACAACATCAACGTCCTTGAGGGCGATGAGCAGTTTGTCAATGCTGCCAAGATCATCAAGCATCCCAACTTCGATAGGAAGACCCTGAACAATGACATCATGCTGATCAAGCTCTCTTCCCCTGTGAAACTCAATGCTCGAGTGGCCACTGTGGCTCTGCCCAGCTCCTGTGCACCTGCAGGCACTCAGTGCCTCATCTCTGGCTGGGGCAACACCCTCAGCTTCGGTG
Seq A exon
GTGAGTAGGACCTGTCACCTAGTACACGTTTGTTGTGTACACTGCAATCACCAACATTCTAGAAATTATCCCACCTGCTTCTAGGCTAAATATATTGCATGTTCACAGCACACATAGGTTCTGTAACAGATCTAAGAGAAATTTGCACAACACATAATCTGGCCAGGCACACGCAGAATGTACTACTTTTTTCAGGAAAGATATCAGCAGTGAACATTCTCAAATGGGAAAGTTTTTTGTTTTTTGTTTTTTGGTTTTTTTTTTTTTTGGTAGACCTTAAGATTATAGTAAACAGTCCATTGCTTGCCAGCTAGTTCAACACTAGATTGTTGTCTGGATAAAGGATTCTTCATTCTTTTTCTTTCCTCACAG
Seq C2 exon
TCAATGATCCTGATCTGCTCCAGTGCCTGGATGCCCCACTGCTGCCCCAAGCTGACTGTGAGGCCTCCTACCCTGGAAAAATCACCAATAACATGGTCTGTGCTGGCTTCCTAGAGGGAGGCAAGGATTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049855:ENSRNOT00000044960:3
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:
PF0008921=Trypsin=FE(39.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.8=100)
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGACTGGGAGAGCACAACA
R:
GAAGCCAGCACAGACCATGTT
Band lengths:
353-725
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]