RnoINT0130548 @ rn6
Intron Retention
Gene
ENSRNOG00000004155 | Samd14
Description
sterile alpha motif domain containing 14 [Source:RGD Symbol;Acc:1306138]
Coordinates
chr10:82832911-82833267:+
Coord C1 exon
chr10:82832911-82833030
Coord A exon
chr10:82833031-82833111
Coord C2 exon
chr10:82833112-82833267
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCTTCCCATCTCTACCGCAGTTT
3' ss Score
7.91
Exon sequences
Seq C1 exon
GAATCTACCCTGAGCGATGACTCCACACCTCCCAGCAGCAGCCCCAAGATCCCCGGTGACCCTCGACAGGAGACCAAATGCTCCTATCCCTACCATACGTTGTCCCAGTCCTCAGATGAG
Seq A exon
GTGAGTGAGGTTGGCTTTGTCCCTGCTGGGGGGACCCGGCCACAGGCTGGGCTCCCTTTACTCTTCCCATCTCTACCGCAG
Seq C2 exon
TTTCTGGATGAGTCCCTCCCTGCTGTAGAACACTGGACCAGCCAGCAGGTGGGTCAGTGGCTGCACAGCCTCAACCTGGAACAGTATGCCGCTGAGTTTGCTGCCCGGCAGGTGGATGGGCCGCAGCTCCTGCAGCTGGATGGAAGCAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004155:ENSRNOT00000005519:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.825 A=NA C2=0.558
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(66.2=82.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATACGTTGTCCCAGTCCT
R:
TTTGCTTCCATCCAGCTGCAG
Band lengths:
179-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]