RnoINT0121146 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161835225-161836363:-
Coord C1 exon
chr4:161836202-161836363
Coord A exon
chr4:161835453-161836201
Coord C2 exon
chr4:161835225-161835452
Length
749 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CTTGTTCATTTTCCCATTAGGTC
3' ss Score
9.66
Exon sequences
Seq C1 exon
GTTCTTCTTGTTGATGAGAAGGGTCAACCAATCCCCAACAAAAATCTAACTGTCCAAGTGAATTCAGTTAGGTCCCAGTTCACTTTTACTACCGATGAGCATGGCTTGGCCAACATTCTCATCGACACCACCAACTTCACGTTTTCGTTTATGGGAATCAGG
Seq A exon
GTAAGTAGAAACAGGCACGTGAGGCTGAAAAGGCTTAGTTCACAGGACTACGGGCAACGTAAGGATGTGTGAGAGGCACGTGAACTCCAGGGACAGAAGAAAATGTGACAGGAAATAAGGCAAACTGAGCAACATGGAACAGGTAACGGAGGATAGAAGGTCCTGTGTCACCATGGACACTTATAGTATGCTCTGCCTCCTGTAACGCTGGGAAGATTCTTCTGGCGTTGCCTTGAAGTTTTTCGGTATTTTCATAGTTCTATTACCTGGTGATAGATTACACCTGATTCCTTTAGCATAATCCAATTGTCGTTTGTGCTTGAACAGTCAAGTTATCTTATGCACTAACGCAGTAAGAGGATGTGCAGTAGCTACCTAACCAAGACCTGTATGCAAGGCTGGACCTAGCACAATGGGTGGGAGAAGGACTCAGAAGGCCCCGCCCCTGGCAGAGGAGATATATCAGTAGTTCTCAACCTTCCTAGTGCTGTGTGACCCTTTAATACAGTTCCTAATCAATTATTTTCATTGCTATCTCTTATCTGATATGAGACCTCTGTGGAAGAGTTCTTCGACTCCCCCCAAAGGGGTTGCAACACACAGGATGTCATAAAGCAAACCCATGACAGATAGATAGATGGATAGATGGATAGATGGATAGATAGATAGACAGACAGACAGACAGACAGACAGACAGATGGTGAACAGACAAACACTAGATACAAATATCTTGTTCATTTTCCCATTAG
Seq C2 exon
GTCATCTACAAGCAGAACAACATCTGCTTTGATAACTGGTGGGTTGATGAATATCACACACAGGCAGATCATTCTGCAGCTCGCATCTTTTCCCCAAGCCGGAGTTATATTCAACTTGAACTTGTTCTTGGTACTTTGGCTTGTGGGCAAACTCAGGAGATTCGGATACACTTCCTCTTGAATGAAGATGCCCTGAAAGATGCAAAAGACTTAACCTTTTACTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:11
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:
NO
A:
NA
C2:
PF077039=A2M_N_2=PU(26.2=51.3)
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:
AGAAGGGTCAACCAATCCCCA
R:
TGCATCTTTCAGGGCATCTTCA
Band lengths:
350-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]