RnoINT0157336 @ rn6
Intron Retention
Gene
ENSRNOG00000054648 | Tspy1
Description
testis specific protein, Y-linked 1 [Source:RGD Symbol;Acc:3912]
Coordinates
chrY:154234-154657:+
Coord C1 exon
chrY:154234-154379
Coord A exon
chrY:154380-154473
Coord C2 exon
chrY:154474-154657
Length
94 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGC
5' ss Score
3.55
3' ss Seq
TGCCCTCCTTCCAATCACAGATA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GATACAAAGAGTCAGATTCGAGTACAATAGAGTGGATTGGACAGGCTGAGCATGGTTATGCCAACTGCATGCAAGACACTACCAGACTCACTTTCTTCAACTGGCTGTGTGCACACAAATTCCCTGGCTCCAACAGGATTGCTGAG
Seq A exon
GTTGGCTTTCTCTGACCATTCATTATCTTCTAGGGCCTGGGTGGATTACTCCTGGGAATGGGATTTTTATCTTCTGCCCTCCTTCCAATCACAG
Seq C2 exon
ATAATCATGGATGACTTGTGGCCAAATCCTCTTTACTACTACCCTAAGGAAGACCACTCATGAAGAGAGAATTAGGACTGTGCCAGGTGAATAGACAGGTATACTCTGAAATGGTGTTTATCTGGGGCCTCAGTGAAGAATGAGACATGGCCAGGAACATTTACATGTGAGAGAAAGTTGTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054648:ENSRNOT00000077988:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(25.7=100)
A:
NA
C2:
PF0095613=NAP=PD(9.1=81.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CACACAAATTCCCTGGCTCCA
R:
TCATTCTTCACTGAGGCCCCA
Band lengths:
178-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]