RnoINT0121147 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161834176-161835452:-
Coord C1 exon
chr4:161835225-161835452
Coord A exon
chr4:161834240-161835224
Coord C2 exon
chr4:161834176-161834239
Length
985 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTATTTCCTCCTGTCTTCAGATC
3' ss Score
10.7
Exon sequences
Seq C1 exon
GTCATCTACAAGCAGAACAACATCTGCTTTGATAACTGGTGGGTTGATGAATATCACACACAGGCAGATCATTCTGCAGCTCGCATCTTTTCCCCAAGCCGGAGTTATATTCAACTTGAACTTGTTCTTGGTACTTTGGCTTGTGGGCAAACTCAGGAGATTCGGATACACTTCCTCTTGAATGAAGATGCCCTGAAAGATGCAAAAGACTTAACCTTTTACTACCTG
Seq A exon
GTAAGAGTGAAAGCCACCGCATCTCTTTCTAATTGTACAAACTCCACATTTCCCGGGTTCCTCTCAAACTAATGGATTTTAGAGAACATCAGAGTTAATAGTTAAGTTTTTGGTTTTTTTATGCTGGAGGATAAACTGCTTCTTATGAAATTATTCATGCTTTAATTCACCATTTGTGTTGTTCACTACTGAAATTTTTACTCTAACATTTCTTCATCTCTATAAAAAAAAGGGGGGGTACCACATTTACAATAGTTATAATTTCTGTCTTCGCTTCACAGTCATAAGACCTTGGATAATTGGCTAGGCTTCTTCCCCAAAAGCAAATATCAGTTCTCTCACCTGAACATTTGAAACAATAGTCCACATAGTTATTGAACAAGTTGAATTGTTCAAACTACCGTATCTCAGAGTTGAGCACACAGAGAATGAGCACTACATTTTGTTTATTTGAAAATAAGAGTAAGCAGGGGCTGGAGAGACGGCTCAGCAGTTAAGAGCACAGGATGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAACCACGTGGTGGCTCACAACCATCTGTGATGGGGTTTGATGCCCTCTTCTTGTGTGCACTCATATATAAATAAATAAAAATGTAAAAAATAATTTTTAAATAAATAAAAGAAGAGTAACATCAGAGGATACTTACACTGTACATTTGCCTCCACCATATATTTCACATACAGAGAAATATACATATTTTAGGAGGTGCTAAAAATACATATGTACATAGCTTCCACACATTGGTAGAAGTAATACTAAAGAAAATAAAACATAAAATTATGTACTCCTTATTTAAAAATATATGAAAAGGATGGAGGGGAAATATAGTAATAAAAATTACTCCCAAGTTGCAGTAACATGTTAGTTACTTATATATCATGAGTAAGCTAACAGAAATACACTAACCTGTCTGGACAGACAAATGGTAATGGGTGTATTTCCTCCTGTCTTCAG
Seq C2 exon
ATCAAAGCAAGGGGAAGCATCTTTAACTCAGGAAGCCACGTGTTACCGCTTGAACAAGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:12
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:
PF077039=A2M_N_2=PU(26.2=51.3)
A:
NA
C2:
PF077039=A2M_N_2=FE(14.1=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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATCTACAAGCAGAACAACATCT
R:
CCTTGTTCAAGCGGTAACACG
Band lengths:
287-1272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]