RnoINT0169356 @ rn6
Intron Retention
Gene
ENSRNOG00000001434 | Zp3
Description
zona pellucida glycoprotein 3 [Source:RGD Symbol;Acc:620606]
Coordinates
chr12:23737575-23739651:-
Coord C1 exon
chr12:23739468-23739651
Coord A exon
chr12:23737693-23739467
Coord C2 exon
chr12:23737575-23737692
Length
1775 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCTCTTCTTCCCTTCCAAGATG
3' ss Score
8.93
Exon sequences
Seq C1 exon
AGGACTGGAATACTGAGAAATCATCTCCCACCTTCCACCTGGGAGAGGTAGCCCACCTCCAGGCGGAAGTCCAGACCGGAAGCCACCTGCCTCTGCAGTTGTTTGTGGACCACTGCGTGGCCACGCCTTCACCGTTGCCAGGCCAGAACTCCTCCCCCCATCACTTCATCGTGGACTCCCATGG
Seq A exon
GTGAGGCCCGGACTGCTTTCTGGGGAGTCATTTTATTGTCCTTTGGCTTTAAGTATCTTATTAGCATATGTTAACAGATGAATTTGGTGTTATAACATTTTCATATGTGAGCATTTTGGTCAGATTGACTCTTCATCTTTTGCTCTCAAGTAGATTTCTTTTCACAAAATTCCTTCAACTTTGATGTCAAAAGTCCTTGTCTCACTCAGCCCTTTGAGTGTTAGGATCACAAAGTGTGAGCTACTCTGTCTGGTGTGACTGTTAAGCTGTTAAAAACTTGGCACACTTGGAAAGTGGGAGCCTCAACTGAAGTAACTGTGGGCATTTTCTAGGTTACTAATTGAGGTAGGAGGATCCAGCCTACTGGAGCAGGTGGGCCTGGGCTATATAAGAAATGTAGGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGTCCTGGGTTCGATCCCCAGCCCCGGAAAAAAAAAAAAAAAGAAAAATGTAGGGGTTGGGGATTTGGCTCAGTGGTAGAGTGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCGGGGGTGGGGGGGTGGGGTGGGGAATGTAACTGAGAGGCTGGCGCAGCAGTTAAAGAGCACTGGCTGCTCTTCTGGAGGACCCAGGTTCAATCCCCTGCACTCACTCAAACCCCAGACAGCTCACAACTGTCTGTAACTCCAGTTCCAGGGAATCCAACACATATGCAGGCAAAACATCAATGCACAAAGAATAAAATAATTTAAAAAAATGTTAACTTGAGGGCTGTAGAGATGGCCCAGTGGTTAAGAGCACTGACTGTTCTTGCAAAGGTCCGGAGTTCAATTCCCCAAAAATGTTGACTTGAGCAAGCCTTAAGTTACTTTCCTTCTGGTCTGCACTTCAGTTCCTGCTCTCTAGGTACCTTGAGTTCTTCCTACCTTGGTTTCCACCAGTGATAAACCTGTAAGCCAAACAAATGCTTCCCCGCAAGTTGCTATTGGTCAGTTATGGTTTTTTTCAAGATAGGATTTCTGTGTTGCCTTGGCCGTCTGGGACTTTCTATAGATCAGGCTGGCCTCGAGCTTAGAGATCTGCCTGCCTCTGACTCCAAAGTGCTGGGATTAAAGACTCACACCATCACCGGCCAGCTGCATATTGGTCAATTTTTTTTTTTTTTTAGTTTTTTTTTTTCGGAGCTGGGGACCGAACTCAGGGCCTTACGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCCAATTTTTGTATTTAAAGATTTATTTTATTATATATAAGTACACTGTAGCTGTCTTCAGATACACCAGAAGAGGGCATCGGATCTCTTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCATGACCTCTGGAAGAACAGTTGGGTATTCTTAACCACTGAGCCATCTCTCCAGCCCCAATTTTTGTATTTAATGTATGAGTTTCTGCATGTACACCTGCAAGACAGAGGGCCCAAGACTTCACTACAGATGGTTGTGAGCCACCATGTGGTTTGCTGGGAGTCGAACTCAGGACCTCTGGAAGAACAGCCAGTGCTCTTAGCCCCCCCAATCCCCCCCCGAAAGGCATCTCTCCAGCCCTACTGGTCAATTTTTAAATCACAGCAACAGAGAGCAAACTAAGACACCTGGCTTCCCGTCCCCTTTGGTAATGAGATCACCTTAGCTGTTTTATTCTATCCTTCTCTTCTTCCCTTCCAAG
Seq C2 exon
ATGCCTTGTGGACGGTCTATCTGAGAGCTTTTCAGCATTTCAAGTCCCTAGACCCCGGCCAGAGACTCTGCAGTTCACAGTGGACGTATTCCATTTCGCCAACAGCTCCAGAAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001434:ENSRNOT00000001952:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(23.5=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(15.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACTGGAATACTGAGAAATCATCT
R:
CGTATTTCTGGAGCTGTTGGC
Band lengths:
302-2077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]