RnoINT0157339 @ rn6
Intron Retention
Gene
ENSRNOG00000061782 | Tspyl2
Description
TSPY-like 2 [Source:RGD Symbol;Acc:1563283]
Coordinates
chrX:22411165-22411500:-
Coord C1 exon
chrX:22411389-22411500
Coord A exon
chrX:22411311-22411388
Coord C2 exon
chrX:22411165-22411310
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGTATCTCTTCCTCTTCTAGGTC
3' ss Score
13.53
Exon sequences
Seq C1 exon
GTACAGGATCTCAGACATATCTCCATGGGCTACAAAATGAAGCTGTACTTCCAGACAAACCCATACTTCACAAACATGGTGATCGTCAAGGAGTTCCAGCGCAACCGCTCAG
Seq A exon
GTAAGTGGTAGTCCCAGAATAAACTTGTGGCCCCTATATTATCATTTCCCCTCCATTCTGTATCTCTTCCTCTTCTAG
Seq C2 exon
GTCGGTTGGTGTCTCATTCTACCCCAATACGTTGGCATCGGGGACAGGAACCCCAGGTCTACAATCGCAGGAGCCACGACACCAGAGAAAGCTTCTTCAACTGGTTTTCCAACCACAGCCTCCCAGAAGCTGACAGAATTGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061782:ENSRNOT00000084129:3
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=0.184
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(19.9=100)
A:
NA
C2:
PF0095613=NAP=FE(25.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
GATCGTCAAGGAGTTCCAGCG
R:
TTCTGTCAGCTTCTGGGAGGC
Band lengths:
170-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]