RnoINT0081863 @ rn6
Intron Retention
Gene
ENSRNOG00000015196 | LOC102547897
Description
uncharacterized LOC102547897 [Source:RGD Symbol;Acc:7640129]
Coordinates
chr17:78739389-78741032:+
Coord C1 exon
chr17:78739389-78739950
Coord A exon
chr17:78739951-78740508
Coord C2 exon
chr17:78740509-78741032
Length
558 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
ACTCTGGCTTTGTTTTTCAGGGT
3' ss Score
10.32
Exon sequences
Seq C1 exon
ATGGCCACCGCCAATAGCAGTGCAGGCATCCGTTGGTCCAGACAGGAGACTCGAACTCTTCTCTCCATACTGGGCGAGGCGGAGTATATCCAGCGCCTCCAGACTGTGCATCACAATGCGGACGTTTATCGGGCTGTGTCTAAGCGAATGCAGCAGGAGGGCTTCCGCCGCACCGAACGCCAGTGCCGCTCCAAGTTTAAAGTTCTGAAGGCAATGTATTTAAAGGCCTGTGTGGCCCAGGCCACAAGTCTGGGGGGTCCACCGCACTGCCCGTTTTATGATATATTGGATCAGCTTCTTCGAAATCAGACGGTAACTGACCCAGACAACTTAATGGAGGCCACCGCTTGGGCCAAGCACTGTGATCGGGATTTAGTGGCCTCTGACAAGCCAGGGGATGAGGGAGCCAGCGTTCAGGAAGCGAAAAGGACTCAGGCAGCTTGTCATCGGCGTGTTTTGCAAACAGTGAAGGAGTCGGATGAGGATTGCCAACTGAGGATCAGTGATGGGATGGACGAAGCCAGTGACATTGAGGACTCCTGGGATGAATCCTCAGGTGCAG
Seq A exon
GTAACTCCCGGGACATGAGAGGGACTGGGTCTTGGAGTCACTTGGTCCCAGATAGTGTTAAAAGTTTGGATAGTACCCTCTTGAGAGTACCTTTCGTTTCTGTCTCATTGAACTCTCTTTTTTAAATAAAGTACACCAATTTTTTAGCCTATGACCCTGGTATGTAGACAGACTCTTCACACATAAAGACATGGTCTTTCAAAGCATGGTAGCTTGGGCGTTATTTGTGCATGCTTGGCAAGCGCTCCAACCCTGAATGATTTGTCTGGCCTTGGGCATTAGAAGGTACTTAGGACTTTATGGCGGCAGGGTTGGGGGTTGGGGGAATGAGTCGGATAGCCACAAGAAAATCGTCTTCGGGAACACAGTCATTATTTTTATAGCCAGTTAAAGAAGCCAGGATATCCACATTACAGAATTATCTCCCTCTTACCCCCTTGTGCACGGAGGCTTTCCCGAGAACTGCATACTTTTCTGAGTGCCTCAGCTCTGTTGCTGGCTGCGAGCATCCCCTTAGCAGGAATGTCCTCTTTGCAACACTCTGGCTTTGTTTTTCAG
Seq C2 exon
GGTGCTCTCAAGGGACCCTCAACTACAGCAGCTCCCACCACCTTTTCAAAGGTGCAGTAGCTCCCTGTCAGAGCCGCCCCATGACCAGACTGGCTGTGTCGAGGGAATCCAGTCCCTGCACCAGCACCAGCCGAATCCCCCTTGGGGCAGCCTCCACACCACATCCTCCCGGTTCCTCCTCAAGGGTTGCTTTTCTCTCTGGTGAGGATAGACCTCTGATCAGCGAGCCCTCTCCAAGGTGCACAAGGCAGAGAAAGCGCTCGGTGGCCAGAACCATTGCCACTGAACTGGCAGAAAACAGGAGGTTGGCACGAGAACTCTCCAGCAGAGAGGAAGAGAAGCTGGACAGGTTGATTGCCATTGGCGAGGAGGCCAGTGCCCAGCAAGACACCGCCAATGAGCTGCGCAGGGATGCTGTCACGGCTGTCAGACGCCTGGCGACAGCGGTGGAAGAAGCAACGGGTGCTTTCCAGCTAGGGCTTGAGAAGTTGCTTCAGAGACTGATCTCAAATACCAAAAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015196:ENSRNOT00000020384:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.239 A=NA C2=0.615
Domain overlap (PFAM):
C1:
PF138371=Myb_DNA-bind_4=WD(100=48.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
TCATCGGCGTGTTTTGCAAAC
R:
GGCTCGCTGATCAGAGGTCTA
Band lengths:
348-906
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]