RnoINT0121165 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161808995-161810196:-
Coord C1 exon
chr4:161809946-161810196
Coord A exon
chr4:161809214-161809945
Coord C2 exon
chr4:161808995-161809213
Length
732 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TGTATCTTTCTTTTTCTCAGGAT
3' ss Score
10.3
Exon sequences
Seq C1 exon
AGGAATCAGTGCACTGGCAACGTCCTAAGAATGTCGAGGAAAATGTCCGGGAAATGAGGTCCTTCTCTTATAAACCGCGGGCCCCTTCTGCTGAAGTGGAGATGACAGCTTACGTGCTTCTCGCCTACCTCACCTCTGCATCTTCCCGGCCTACGCGAGACCTTTCTTCATCGGACCTGACTACAGCATCCAAGATTGTGAAGTGGATCAGCAAACAACAAAACTCCCATGGGGGGTTCTCCTCCACTCAG
Seq A exon
GTCTGTGGAGAGACCCTAGGAAGGAAAGAGAAAGCAATTAATCTATATACAAACGCAGACATGTATATGCAGCTTCTGACTCATATTTTCTCCACTCCTCCATCACCAAGTCCCACCTAATTCACATATGGAGCACTGCTGGGTCCTCCTTTCACTCCCCTTACCCTCTCCTCACACAGGTCCTCCACATCACCACGGGTCAGTTTCCCAAAGTACTGTTTTTGTAATGTTTTTTAAAACCTTACTACTTCCATGAGAAAAAAGTAACTTTATTTTCATCCACAGACTAAAATTCTCACTCTACCTAAGCTACTTCCTGTCCACAGCAGCGCCACAAGTCCTCGTGCTGTTTTTGGAGTGGACTTGCTCCCATGTCTGAGACCATTTGAAACATTCCAGCTCTGCCATGGTGCTCCTTTCCCTCTACATGAATGTGTTTTATTATCTCATCTCCAGTCTTCTTTTTCTCTCCGCCTGCATCTTCTTCCCCGTTTCTAGCTTGCAACAAATATCGCAACGCAGATTTATAAACTGCTGGGGTCATATGCTCAGTTCACATTCCTGTATATATTGTAATGTGTGTAAACGATAGAACGGACTCCTCCTGCAGTAGCTAGATTGGGTCCCCGTTAGCTCGCAGGACCGAACGAACCCTGGTGCTAACGTTGGACATTCAGGGTGGTCTTGCTATTGCTGCTTTCTCTGCAATGTCTGTATCTTTCTTTTTCTCAG
Seq C2 exon
GATACAGTGGTGGCTCTTCAAGCCCTCTCCAAATATGGAGCAGCCACTTTTACGAAAAGTAATAAAGAAGTGTCGGTCACCATCGAGTCTTCAGGGACCGTCTCTGGGACTCTCCATGTTAACAATGGCAATCGCCTGCTGCTGCAGGAAGTCAGGCTGGCAGATCTGCCCGGAAATTACATCACCAAAGTGTCAGGGTCAGGATGTGTGTACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(31.2=100)
A:
NA
C2:
PF076789=A2M_comp=PD(4.9=17.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCGCCTACCTCACCTCTG
R:
ACACACATCCTGACCCTGACA
Band lengths:
345-1077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]