RnoINT0000174 @ rn6
Intron Retention
Gene
ENSRNOG00000017963 | AABR07001099.1
Description
NA
Coordinates
chr1:37885946-37886675:-
Coord C1 exon
chr1:37886491-37886675
Coord A exon
chr1:37886042-37886490
Coord C2 exon
chr1:37885946-37886041
Length
449 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TCTCTTTTTTTTACAAACAGGTC
3' ss Score
10.98
Exon sequences
Seq C1 exon
ATTATTAATCATTTTGACCTATTAACAGTGTTTTACCATTCATTGGTCTTTATTTCAGGAAATGCTGTCATTCAGGGATGTGGCCGTTGATTTCTCTCCAGAAGAGAGGGAGTACCTGGGGCCTTCTCAGTGGAGTCTGTATAGGGATGTGATGCTAGAAAATTACAGCAACCTTGTGTTCTTGG
Seq A exon
GTGAGCATTCCATCTATAGAGAATTCTTTTTCACCATCAAGTGTAATTTCTTCCTTTGGTATAATAGCTCACTGAGATGGAGAGACTGCAATATAGCTAAGAAACATGTTACTTTTCTTTTTGTGTTTGTAACTTGCCTGTATTGGAAATATATCTCCTCCAGTCTAATGGGAATTTTAGAAAGTTTATTTATATATTTCACAATTCAATTATTCATGTTTTCCCTTTAAATGAAAATCAGAATCTGCAGATTCTAAGTCCCCCAACAGTATTTTAATATACTGTATATCCTAATATAGGTATATCAGGAACCATATAAAGGATTAATATTTTTATAGTTTCTTGCATTGCATCATATCCTTTCTCATAAGCAGTATTCTAGTTGGAACTGACCTATTCCCAGGAGAAGGACACTACAACAGTGTTGTATCTCTTTTTTTTACAAACAG
Seq C2 exon
GTCTTGCTGTTGCTAAGCCATACTTGGTAACATTTCTGGAGCAAACCCAAGGGTCTTCGGGTGTGAAAAGACAAGAAGCAGCCACCATCCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017963:ENSRNOT00000024149:1
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=0.333
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=97.6)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGACCTATTAACAGTGTTTTACCA
R:
GATGGTGGCTGCTTCTTGTCT
Band lengths:
262-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]