RnoINT0157337 @ rn6
Intron Retention
Gene
ENSRNOG00000061782 | Tspyl2
Description
TSPY-like 2 [Source:RGD Symbol;Acc:1563283]
Coordinates
chrX:22411608-22413714:-
Coord C1 exon
chrX:22412815-22413714
Coord A exon
chrX:22411686-22412814
Coord C2 exon
chrX:22411608-22411685
Length
1129 bp
Sequences
Splice sites
5' ss Seq
GCAGTATCC
5' ss Score
-5.12
3' ss Seq
TAAACTGCTCCACTCATTAGTTC
3' ss Score
2.74
Exon sequences
Seq C1 exon
GAGCTGGTCGCGTGAGGTGTGGCGGCTCCGCTTCAAGTGTGACTGGTGCCTGAGGCCTTGTCTGAGAGCCGAAAAGCCAGTGCTTTGAGCGCGGTCACCATGGACCGCCCGGATGAGGGGCCTCCGGCCAAGACCCCCCGCCTGAGCAGCTCGGAATCCCGTCAGCGCGACCTGCCGCCCCCGCCACCCCCACCACTCCTGCGACTGCCCCTGCCTCCACCCCAGCAGCGTCCGAGACCCCAGGAAGAGACCGAGGCTGCACAGGTGCTGGCTGACATGAGGGGGGTGGGCCCCACGCTGCCCCCACCACTGCCCTATGTCATTCTCGAGGAGGGGGGTATCCGTGCGTATTTCACTCTGGGTGCTGAGAGTCCGGGCTGGGATCCTGCGATTGAGTCAGGGTTCGGGGAGGTCCCGTCCACAGAGATCATAGAAACACTCCCGTCTTCAGAAGCCTCTAGGGGAAGCCTGGAAATTGACTTTCAGGTTGCAGAACACAGCAGCCTTGGAGAGAAGGCCCTAGAAACCTGTAGCTTTGGAGGGTGGGGGCCCCAGATGTTAGTCGGTCCAAAGAGGAAGGAGGAGGCTATCATCATAGTGGAAGATGAGGATGAGGATGAAAAGGAAAGTATGAGGAGGCTGCAGCAGCGTCGGCGGAGGAGGAGAAGGAGGAGGAGGAGGAAGCAGAGGAAGGCGAAGGAGAGCAGAGAGAGGAGTGCGCAGAGGATGGAAAGCATACTGCAGGCCCTGGAGAGCATTCAAATGGACCTGGAGGCGGTGAACATCAAGGCAGGCAAGGCCTTCTTGCGTCTCAAACGCAAGTTCATCCAGATGCGAAGACCCTTTTTGGAGCGCAGAGACCTCATCATCCAGCATATCCCAGGCTTCTGGGTCAAAGCA
Seq A exon
GTATCCTTCTCATCAGTATGCATGCCAGAAGCCCATGCCTGAAGGGGAGATGTTCAAAAGAGAAACAAGGGGTGTGGGGGAGGGTCAGAGATAGGAATGAATCCCTCTTAGAAGATTCTAGAAAGAGTAGAAGAGGGATGACAAGAGGGCAAAATCAAATTTAAAACTGGACTGCAGATGGGAAAAAGGTAGCATTGTAACATTTAATAAGAAAATGGATCCCAGACAGTAAAAGAGGGAGGGGTAACAGAGGAGGCACACAACCCATAAACAGAACAGCAGATAAAGGAGGAGAGGAGGGGGAATACAGGTGAGGAACTGACTAAGGAGGGAGGGCACAGAAACTCTTCAGGAAGTGTGCTCAAACCACACAAGTCTCTGTAAGCCTGAATCTCTGCTTAGATACCTAGAAATCTCAAATCTGTCTACCGTCCTGTCCATTAGAGAGGGGAGGATAGAAATGGGATGGAACCCTGAAGAATCAGGAGAAAGATCACTTGGTTGTGGAGCTCAAGTGGTTAAATGAAGGGAAAGATAGAATAAGAAGAATACAATCCACTATTTGTGACTGTTGAGTTCATCCCCAGAGAAACATGTATGAAACATTTGAAATACACAGGTTTAACATTTTACTAGAACTGATATAGATAAATATCACATGATCACAGGCTCTCAGCAGTCAGGCACAGGGTATCATGTAGATACATAACTTCCATATCTAGACATGAGGCAACTGGGCCTAGGCACACAAACCTCTAGAGGCATTCATACACTGTGTGGACACTGACTGTCAACATCTATACATGTAACATCATTTAAATACAGGCCCTTGGTAACCAAATACATCATTACTTAGACTTGGGCTTTGAGCTCCCAAACACATAGTATTTTGTTAACATAAGCACAAGAGTCACATGCACATGGTCAGAGACCCTTAGCATCTAGACATACAGCAAATATGAACCACAGCAAGGCTCCCTAACACTGAGGTTTAACATTGCATAAGCACCCACCTCCTCCACATAGATCACTCAAACACAGAAGGAACCCTCTGGCTTCAGCCTGTTTTGCTCTGCCCTCCCTGGCATTTGAACAGTTAATCCTTGACCTAAACTGCTCCACTCATTAG
Seq C2 exon
TTCCTCAACCACCCCAGAATTTCAATCTTGATCAACCAACGCGATGAAGACATCTTCCGCTACTTGACCAATCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061782:ENSRNOT00000084129:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.558 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095613=NAP=PU(30.1=21.0)
A:
NA
C2:
PF0095613=NAP=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAAGAGGAAGGAGGAGGC
R:
TGAAATTCTGGGGTGGTTGAGG
Band lengths:
358-1487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]