RnoINT0058137 @ rn6
Intron Retention
Gene
ENSRNOG00000010019 | Fam166a
Description
family with sequence similarity 166, member A [Source:RGD Symbol;Acc:1562762]
Coordinates
chr3:2440743-2441219:+
Coord C1 exon
chr3:2440743-2440837
Coord A exon
chr3:2440838-2441101
Coord C2 exon
chr3:2441102-2441219
Length
264 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GCACATGTCCTTTTCTCTAGTTT
3' ss Score
7.07
Exon sequences
Seq C1 exon
GTTATGCTGGCTTTGTTCCCCGGTTTGCCTGGGTAATGGGGATGAATTATCGTGATGGAGTCATACAAGCGATGGATGACTTTGACAAGAACCAG
Seq A exon
GTAGGAAAAATATGGTCCTAGCCTGCCTTCCACACACCTCAACTAGGTCAGGCCTCCCTGCATTCTTGTTCTCACTTCCACCTTAATGATCCTTTCCCAGGGGTCATCCTTAAGGCCAAGTTTGCTGGGGCTTGGGGCTGTTCACATAGTAATCAGGCTTGATTCCCTAGTGAGGGGCATGGGGTGGCCAGTCAGATGGGGAAGACTCCCTAGAGGCTCGATCTTGGTCCACTGTGGGCCAACAGCACATGTCCTTTTCTCTAG
Seq C2 exon
TTTGTGTTCAAGCACCCAGTCTGTACGCTGGGTGAAAGGCTGCCCAAGACCCACTGGCCAACCACCACCATCTACAGAAGCCAAGGCCTCATTCCTTTCTACATGGGCTTCATCCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010019:ENSRNOT00000013335:6
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:
NO
A:
NA
C2:
PF106294=DUF2475=PU(31.0=32.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTATGCTGGCTTTGTTCCCCG
R:
GGATGAAGCCCATGTAGAAAGGA
Band lengths:
209-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]