RnoINT0121158 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161813442-161816794:-
Coord C1 exon
chr4:161816743-161816794
Coord A exon
chr4:161813526-161816742
Coord C2 exon
chr4:161813442-161813525
Length
3217 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTAATGTCTTCTTTCATTAGATG
3' ss Score
7.53
Exon sequences
Seq C1 exon
CCTGAAGGAATTGAGAAGGAACAAACGTACAACACACTGTTATGCCCACAAG
Seq A exon
GTAAGTGTGACAAAACAAAATTCTCAGGTTAGGCCGTTTAGTAGAATTTCTAACTGTGGAGAAACCATCTCTGGGCTATGGGTTACTCTGAAGAGAAAAATAAAACAAACACTTTTATGTTCTTTCCATGCACACCTAAATATATCTCATGAAGAGAAACCCTTTCTGGGTGAAAAACTCACAGGTGGGCTCATTTTCCCCAGGGTAATAAGGATAAGTACTACTGAGGGCTCACTGTCATTATTACTCTCATATTTTAAGGATAAAGAAGAGGTGTGGTGGAAGACATGGCCCTGCTTAGTGATGAGAACTAAACCCTTTGGCTGGGACAGGAGTCTTTCTAATACATCTGTCAAACTCTTCCTCAAACTCTGTTGAGGATGTTGAAGGACCAGTGTGGCATTGGTCTATTGCCATGTTACATCAGTCATTTAAATATATCCATACTTGTGCTTTGACTCACAGAATCTCTAGGGCACCGGCACAGACGCCAAAACTGTGTGTGACCAACACTGTTAGCATGGTCATATAAAAAATCCCCAGCTAAAGAGTTGTCACCATCTAGAATGTTCCTCAAGGTGAGGGTTTTTTCTACAAGTCTGTTCCCTGTACAGATACCTTCCAACTCACAAAGGGGTGGCAACCTATCAAATCCATCACAAATTGGAATAGTAGGAGTAAAAATACACTTATCATACCTAGCCTGTAGGACGCCATAGATCAGCAACACACGTGTCTGCTCTTATAACCACATCCTGGCTCAAAGCAGAGGATGCCCTGCCACTCTGAAGCCTCACAAAGGGTGTGGCTGTATTGCAGGTCAGGGCAAAGGGTGATGTTTAGAATTCAAGCGGCTTATTATCTCTACTGACTGCACATCACTTTCATACCAAGGTGACTGGAGCCATCATAAGTCAGGGACCATTGTGTAAATATATTTGGTAGTCTCGTCTATGTACATTGTGTATGCGTGTGTGCATGTGCATGTGTGTTCCTGTGGAGGATGTATATATGTGCATGTGCATTTGGAGGACAAAATTCAACCTCAGACATTGTACCCCAAGTGCTATCCACCTTATTTTTGTATGACAAGTTCTCTCACTAACCTAGTTCGTAAGACAGGTCTGCTCACCAGCAAACCTGAGGGATCCCCCTGTCTCTGCTTCCCCAAAGCTGAGATTTCAAATATACTCTACCATGCCTGGCTTCTTCCCACCATGGGTTCTGAGTCCCAAGCTCAGGACCTCAGAGTGAACATTCTCCTGACTAAGCCACCTTCCCAGCCCTAGGCACCTGCTTTAATGGCAGCTAAGTCCCAGATCCAAACATCACTGGTACACATCTCCCTTCTGGGCTCAGATCCCTGCATTTAGGCTCATATGCACTCGCAGGCTTGCAGGTCTAACAGGTACCTCAGAAGCACCCTTCTGACAGAGGGAAGTATTGCTAGCCCCACGCCTCTGCTACCTCACACCTTGGTAATTTCAGTCTTCTACAGGTCAAGTGTAAAAAACTGAATCTGCGTTTATCCCGTTATTTCTCTCGTACTCCGCCCAGATCCATTCACACATCTGATTGACAAGACTTTCAAGTGAGATCAGGGTGTACCCACTGCTTGCTGTATCTTCTACCACAGTCCTTTCTCCGACTGAACCATCTAAATGACTTCCTAATTGTGCTGCATGCAGTGGTGCATTCGGTCATTAGAAAGTAGAGGCAGGAACATCGCAAGTTTGAGGCCAAGATAGACAGTAAGAGCACATCTCAAAAAAAAAATGAATTCAGTAATTTCCTAACTGACCTCTTGACCATCATCCCCGGTCGTCCCCTTACTGCAAGCCATTTCCTTCAAGAATGTGACAAACCAGCGGGAACATGCCCTCCCGCTCTCCTATGTTCCACAGAACTACAACCCGTAACCTCACTCATCCTCAAGCCCTCCCCGGGGACCCCTAAACATCATGGCCTGTTGCTCTGACATTGTGCCAGCCCTGTGCTTTGTGTCAGTCACGCCACCTGTCCCAGTCTGGTTTCTATTCCTGCACAGAACATCAGGACCATGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACACTTCCACACTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGGGGTGTTACTTACTGCCTTGCTTCCCCTGGCTTGCTCAGCTTGCTTTCTTATAGAACCCAAGACCACCAGCCCAGGGATGGCACCACCCACAGTGGGCTGGGGCTGGGCCCTCCCACCCTTGATCACTAGTTGAGGAAATGCCTTACAGCTGCATCTCATGGAGGCATCTCCTCAAGGGAGGCTCCTTTCTCTGTGATAACTCCAGCTTGTGTCAAGTTCACACACAAAACCAGTCAGTACATCAGCCTTCTCCTTTGTCTTGGAACACATTGATCCTGCTTCAGTCTCTGAAGTCTTTTTGCATTTGTTTCATTTTTCCTGGAAGTTATCTCCCATATCTCCCATCTATAAATCTTACTCCATGACTGACTGCCGAATGACTTCATCGATAAGTCTTTCCACAGTGACTCACCTCCCCAGTCTCCCACATCCAGACTGCCCACACTTTATTGGTTCAGGCCATAAACAGCCTCTTTTCACTTTCTCCAGTACCCACCACTGTCGACTTCACTAAACACATCCCTACTTGTTTACCAACCCTACCTATAGGAATAAACAATCTAAGAAATCAGGAAATTAGCTTTGAAAACTGCCAGTCAGTAGGCAATGTGCTTGCTGTACAAGAACGAGGATATGAATTTGGATCTCACACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAATGAATTTATATAATCCCTGAGAAAGAGGAAGTCCTCCATAAGGAAGGAAATCATATAATCAATAAGAATTTTACCATAAAACAAATGGTGATTTTGGGAGAAACTGAATTGCATAAGAAATTGCCTATGGTCCAAGAGATATGGAAATGTTGCATCTAATAATAAGGAAAAACATTTGACAAGCATTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCTCACACACACACACACAGACACACACACACACACACACACACACACACACACACTATAATTGTCTAATGTCTTCTTTCATTAG
Seq C2 exon
ATGCTGAGTTACAGGAAAATTGGACACTGGATCTTCCAGCCAATGTGGTTGAAGGATCTGCCAGGGCTACACAGTCCGTTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]