RnoINT0141551 @ rn6
Intron Retention
Gene
ENSRNOG00000033983 | Sohlh1
Description
spermatogenesis and oogenesis specific basic helix-loop-helix 1 [Source:RGD Symbol;Acc:1564440]
Coordinates
chr3:3292342-3293251:-
Coord C1 exon
chr3:3293118-3293251
Coord A exon
chr3:3292529-3293117
Coord C2 exon
chr3:3292342-3292528
Length
589 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
ACCTATCTTTTCCCTGTCAGAGT
3' ss Score
9
Exon sequences
Seq C1 exon
GGTGCAGGACCCCCCATGCTGTGGCATGCTGGATACAGACCAGAGCCAAGCTACTGAGAGGGCGTCGGAGCTTCTGGAGAGGCCTTCCTCCTGCCCTGGTAAGAGCCAGAGCTCCTTGTCATTCAGTGAGTCAG
Seq A exon
GTGACCTGTGACCCTGAAATGACCCTTGCTGAAAGGGGTGCCTCCTCTGGGCAGAGTCTAGAACAGCTGGCTCTCACCTCTGCCTGTGCCGAGGTCGGGTGGCTGTGAGGCCTCCAGCTTTTCCAGCTGTTCCTCCAGTGCATGCATGGGGTCTTGTTCCCCAATGCCATGCCCCAGTCAGGAGATACCAGTGAGTTACCAGCTGGGCTGCTTCTCATGCCAGTTTGCCTTTCCGGGATGCTTGGTCTCCCCCTCGGTTATATTTGCTATGTCTGCACGTCTCAGCTGGCTGGCACGGGTTCTAAGCAACCACAGACATAGGGTCGGGATCGGCAGCTGGTCTGAGGGAGGAAGGAGTTCAAGGTCATAGGAGCAGTGCTGAGGGGAACTCCTGATTGGAGCCCTTTCGAGTGACCCAAGGCCTAGGGGCTACCTTTTCCAGGAACCTGCCCTGACCCAGAGTTGGACACCTAGTTTTGGTCACGCCCCTGCGTGGTCATCTGTTGTCAAATACTTCTGGCTTTCACATGCACACACTGTAGGACAGTACTTGGCCTAAACTGTGGGTAACCTATCTTTTCCCTGTCAG
Seq C2 exon
AGTCCTCCAGCTTGGGTGCTGGGCTCCCACCCTGGCCTCCTCACTCATGGCAGCCAGCCACTCCCGAGGCGAGTGACGCTGTTTCTGGTGGATCACAGCAGGTGGGATCCCTGGCCGGGGACACTGAGTCTCCGGGCATGCTGGCTGAGGAGGCCAACTTGGTCTTGGCATCTGTGCCTGATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033983:ENSRNOT00000051729:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.913 A=NA C2=0.889
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
GCTGTGGCATGCTGGATACA
R:
CTGGCATCAGGCACAGAT
Band lengths:
304-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]