RnoINT0121175 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161845517-161846598:-
Coord C1 exon
chr4:161846430-161846598
Coord A exon
chr4:161845602-161846429
Coord C2 exon
chr4:161845517-161845601
Length
828 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTTCCTCTATTCTAAACAGTTT
3' ss Score
8.79
Exon sequences
Seq C1 exon
AATCCCAAGAGGAACAGAATCTTTCAATGGCAAAATGTCGATCTACCAGGAGGACTGCACCAGCTCTCTTTCCCACTGTCTGTTGAGCCAGCTCTAGGCATCTACAAGGTTGTAGTGCAGAAGGACTCAGGGAAGAAAATAGAACATTCCTTTGAGGTGAAGGAATATG
Seq A exon
GTAAGAATTGTACACATTTAAGGCATTTATGATGGTGGGACCCTTAAGGTTACTTTTCTGTATTTGTGTGTGGTATATGCATGTGTGTCCATGTTGGAGGTGTGCTATGTTCTCACTCTGTGTGTGCAGATGAGATGGGAGTTGATATCAGGAATATACCAATCATTAAGCATGATTCTCAAAGCCCCCCAGACCTTCTATGACAATTACATAATAAGATAACAGCTTTCACTCTTATGGGGGAAATTTGGAAAAGGAATGACTCAACAGGAGGAAGTGGCAAATCCCAGAACATGACTAGCAAGTTCTAAAGTGGGCATGGGCTTAGTCAGAGCATAAGGGGGATGGGGGGTGCAACTTCAGGTTCCAGAATGGAAGATTTGCAGGAATCGTGAAAGAGTCTGCAGACCTTCAGTTCAGTACAACCATGTGTCTGACAATGGGACTGACGATGTCTGTCAGTCAGAAGAACTAGCTTTTGGTTAAAATGAGAAAGGGAGGAGGGGAAGAGAGAGGAAAACAAATCAAACTTGAACGCACTGGCCCTACTGTTCCTTCAACTAACTGTGATGGATCTTCAGACTCAGTGGTGTTTCACCCACCTTTGAAATCTTGCACAAAATCAGAGAAGATGAGTCTGGGAAATGTAGTCCAGTTTCACCAAGTGGTCATGGTACCAACTGCTCACAGGAATGAATGACAACATCTCTTTCCTAGTGTTGATTTCTGTGTTATTCTATGCCATAGATGCCTCTAATAAAATCCACTGGTAATATTTATGAGGTCTCTTACGTACTCTCACCTCTTTTTTTCCTCTATTCTAAACAG
Seq C2 exon
TTTTACCCAAATTTGAGGTGCAAGTAAAAATGCCCAAGACGATGGCTTTCCTGGAAGAGGAACTTGTTGTAACTGCTTGTGGCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:6
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=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PD(55.3=91.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAAGAGGAACAGAATCTTTCA
R:
GCCACAAGCAGTTACAACAAGT
Band lengths:
250-1078
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]