RnoINT0121161 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161811820-161812537:-
Coord C1 exon
chr4:161812447-161812537
Coord A exon
chr4:161811977-161812446
Coord C2 exon
chr4:161811820-161811976
Length
470 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTCCCTTTCTGCTGGGCAGGCT
3' ss Score
7.75
Exon sequences
Seq C1 exon
GGTACCAGAGGCAGCTGAACTATCAGCACAGTGACGGTTCATACAGCACATTCGGGGACCGCGGTATGAGGCACAGTCAGGGAAACACTTG
Seq A exon
GTAAGAGGAAACTATGTCTTCCTGCTCTGCTGATCCGAGGTGCTTGAGGAGTCAAGAAAAGGCTGTTCTCTTGAGCCTGGGATTCTTTTCTAGAAGATTGACTCATTATTAAAACTCCAAATGTCAACCCTGCTGATCCTTACAAACCCGCCTGCTCTTCCAGCACAGCTGATAATAGTGAAATCAAAGAGACAGAGGTGTGAGGCAGGAAGTGCAGTTGTCCACAGCGATGGGGAGGAGTCCTCACTGCCCTTTGGAGAGGGCAAAGCAGAGAGAAGGGAGAGAGAAGGAAATGCAGTTTTGATGGGAGGGTGCTGTAACAGTTCAAAAATATCTATTTTATAAGACCAAAAGAGTGACACCATCAACTAATGCCCTAGAACGAGCCCCACTGAACCCTGAAGATCAGAGCAGCACACAGTGAGCTTTAAAAGTGACCTGCTGTCTCGATCTCCCTTTCTGCTGGGCAG
Seq C2 exon
GCTCACTGCATTTGTGCTCAAGGCCTTCGCTCAAGCTCAGTCATACATCTATATAGAAAAGACACACATCACAAATGCTTTCAATTGGCTCTCGATGAAACAAAGGGAGAACGGTTGTTTCCAACAGTCTGGATCCCTGCTCAACAATGCGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(11.3=100)
A:
NA
C2:
PF076789=A2M_comp=FE(19.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCAGAGGCAGCTGAACT
R:
TCATCGCATTGTTGAGCAGGG
Band lengths:
246-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]