RnoINT0058138 @ rn6
Intron Retention
Gene
ENSRNOG00000010019 | Fam166a
Description
family with sequence similarity 166, member A [Source:RGD Symbol;Acc:1562762]
Coordinates
chr3:2441102-2441706:+
Coord C1 exon
chr3:2441102-2441219
Coord A exon
chr3:2441220-2441507
Coord C2 exon
chr3:2441508-2441706
Length
288 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
AAAGCCTTTCTTCCTTGCAGCCA
3' ss Score
8.58
Exon sequences
Seq C1 exon
TTTGTGTTCAAGCACCCAGTCTGTACGCTGGGTGAAAGGCTGCCCAAGACCCACTGGCCAACCACCACCATCTACAGAAGCCAAGGCCTCATTCCTTTCTACATGGGCTTCATCCCAT
Seq A exon
GTGAGTACTGCTCCCTATCAGAAGCCCATGCTTACTTCCAAAGGACAAGTTTATACTACACACCAAACCTGGGACAGGGTCAAATGAGCCTGCTTTATCCTCCACAACTGACAATAACCAGTCATTGGCCCACTGGCTAGAGTCCCAGTTTGGACTTGGATTAACTACCCACTCATTAATGTGGCTACTCCACGCCTAGATTCTAGAGTTGCTCTGGGTCACAGCCTGCACTGACCTCTCCAATGTGCTAATCCCAGGACCTTTTCTTAAAGCCTTTCTTCCTTGCAG
Seq C2 exon
CCATGCAGGACAACTATGCAATGACCTTCGGTAACAGCACCCGGAGAGCCTATCAGAAGGAACTGGAGAGGCGCAGCCAGACACTATGAATTGCTTTAATGGTGGTATCTGTACAAGTGATGTCAGGACACAGGACAGCAAATGCACAGTGGACATGGCTAGCAGACAAGCTGTGAATGAATAAAGAGTTCACACTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010019:ENSRNOT00000013335:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.138
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PU(31.0=32.5)
A:
NA
C2:
PF106294=DUF2475=PD(66.7=93.3)
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:
GTGTTCAAGCACCCAGTCTGT
R:
TTCACAGCTTGTCTGCTAGCC
Band lengths:
292-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]