RnoINT0117013 @ rn6
Intron Retention
Gene
ENSRNOG00000008674 | Prdm11
Description
PR/SET domain 11 [Source:RGD Symbol;Acc:1597330]
Coordinates
chr3:81867438-81873135:-
Coord C1 exon
chr3:81872524-81873135
Coord A exon
chr3:81871484-81872523
Coord C2 exon
chr3:81867438-81871483
Length
1040 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CCTCCCCTCTTATTTTCCAGCTT
3' ss Score
11.03
Exon sequences
Seq C1 exon
GAGAGAAGAGATTGCAGAGAGAGAAGGCTGAGCAAGCCCTGGATAACCCAGAAGACCTAAGGGGTCCCTCCCATTTCCCTGTGTTGAAGCAGGGCAGAAGTCCTTACAAGCGCAGCTTTGATGAGGGGGACCTCCACCCTCAGGCCAAGAAGAAGAAAATAGACCTCATCTTCAAGGACGTCCTGGAAGCCTCACTGGAGTCTGCTAACGCGGAAGGCCGCCAGCTGGCCCTGAGCACCTCCCTGGTCATCCGGAAAGTCCCCAAGTACCAGGACGATGACTATGGTAGAGCTGCCCTGACACAAGGCATCTGCAGGACCCCAGGGGAAGGGGACTGGAAGGTCCCTCAAAAGGTGGCCAAGGAGCTAGGCCCACTGGAAGATGAAGAGGAGGAGCATACGTCGTTCAAGGCCGACAGCCCCGCTGAGGCCTCTCTGGCATCTGACCCCCACGAGCTGCCCACCACCTCCTTTTGCCCTAACTGCATCCGACTGAAAAAGAAAGTGCGGGAATTGCAGGCGGAGCTAGATATGCTTAAGTCTGGAAAGGTGCCTGAGCCTCCCATTCTGCCACAGCAGGTACTGGAGCTCCCAGAGTTCTCAGATCCTGCAG
Seq A exon
GTAAGTTGCTGAGGATGAGGTCACTATTAAAGGGAAGAGTGTGTAGTGCAGCGCCCTGTGTGGAGGGTGGCCCAGAGCTCTCTGTCACAGTCGCCACCGGAGAACAGAGGAGTGCAACGCAGAGGCAGCCACCTCTGGGGGTGGGAACCCACTTCCTCAGGTGCCAGAGGCAGGCCGGCTTGAAGCTCTGGGGGGCATTGCATGTGCCAACCTGTATCCTCATCAATAAAATACGTCCCATTGCAGGAGGGCTGTGTGCTGTGTTCTTGACCTGTTGTTTTCTCTTGGGCAGGGGCGGGGGTCCCACCGTTGTCTCCCCTGACCCAACTTCTCTCTCCCTCAGTCTTGAACAGGGTGTCTGCTGGGAGCTTTCACAGCTCCCCAAACTCAGGCCAGGAGCACAGCCTCGTCCACTTCTTCCAGACTCTGTCCTACCCACATGGTGCTCGGTTCCCAGCCTGGAGTTCTAGAAGGATGAGGAACCAGAGAGCCTGGGGCTGACAGCTGTGTGACTGTCCTTTTTTGCTGGCTGCCTGGATCTCTTCAAGTTGTTGGACCGAGGAAGAACTGGGGGTCGATTCTGTGCAGATCTGCAGCTAAGCCGGGCTGTTTTCCCCAGGCTTTCCTTCTCGGCTGCCCTCAGAATGGGGTGGGGTGGACATAAAAACCGCATTTCGCCTCAGTTAAGAGCCACGTGCTTACCCTGACCATATCAGTGGGCATTCCAGTGCCAGGGCCTCCAGTGTAACCTGAATGCGTGTCATCAGACATTTTGCCTCTCCTAGAACATTCCACCCCAGAAGCACCCACAAGTCAAGGCTGAGCTCAGGCACAGGCAGCTTGGAGCATAACGAGTAGCGTCCAAGACCACCATGGGCAACTCATGGGGAGGGAACCTCAGTGTGGAGAGCAGGGTTTCCCTTGAATCAACTCCAGGCTGGGCTTCCATCTCTGTGGGTCCTACTCTCCCTCAGAGTCCCTTGCCAAGCCTGTGCTGTCAACAGCCCACGTGAATGTCTCCCTCCCCTCTTATTTTCCAG
Seq C2 exon
CTTCAGAGAGTATGGTCTCCTGCCCAGCCATCATGGAGGACGACGACCAGGAAGTGGATTCTGCAGACGAATCTGTCTCCAATGACGTGATGACGGCAACCGACGAACCCTCCAAGTTGTCCTCTGCCACGGGACGCCGCATCCGGCGCTTCAAGCAGGAGTGGCTGAAGAAGTTCTGGTTCCTAAGGTACTCCCCGACCCTCAACGAGATGTGGTGCCATGTGTGCCGCCAGTACACGGTGCAGTCCTCACGCACGTCCGCCTTCATCATCGGCTCCAAGCAGTTCAAGATCCACACCATCAAACTGCACAGTCAGAGTAACCTGCACAAGAAGTGCCTGCAGCTGTACAAGCTGCGCATGCACCCGGAGAAGACAGAGGAGATGTGCCGCAACATGACCCTGCTCTTCAACACTGCCTACCACCTGGCACTGGAGGGAAGGCCCTACCTCGACTTCCGGCCACTGGCAGAGCTGCTGCGTAAGTGCGAGCTCAAGGTGGTGGACCAGTATATGAATGAGGGGGACTGCCAGATCCTCATCCACCACATCGCCCGGGCACTGCGAGAGGACCTGGTGGAGCGCATCCGTCAGTCACCCTGCCTCAGCATCATCCTGGATGGGCAGAGTGACGACCTCCTGGCTGACACGGTGGCCGTCTATGTGCAGTATACCAGCAGCGATGGGCCCCCGGCCACAGAATTCCTATCCTTGCAGGAGCTAGGCTTCTCCAGCACAGAAAGCTATCTCCAGGCTCTTGACCGGGCCTTTGCTGCTCTGGGCATCCGCTTACAGGATGAGAAGCCAACTGTGGGCCTGGGAGTCGATGGGGCCAACATCACCGCCAGCTTGCGTGCCAGCATGTTCATGACCATCCGCAAGACGCTGCCATGGCTGCTGTGCTTGCCCTTCATGGTGCACCGGCCACACCTGGAGATCCTGGATGCCATCAGTGGGAAGGAACTGCCCTGTCTAGAGGAGCTGGAGAACAACCTGAAGCAGCTCCTCAGCTTCTACCGCTACTCACCACGCCTCATGTGTGAGCTGCGCTCCACGGCCTCTACCCTGTGCGAGGAGACTGAATTCCTGGGAGACATCCGTGCCGTGAGGTGGATCATCGGTGAGCAGAATGTCTTGAATGCCCTTATCAAGGATTACCTGGAAGTGGTGGCCCACCTGAAGGATGTCAGCAGCCAGACACAGCGGGCAGACGCTTCCGCCATAGCCCTGGCCCTGTTGCAGTTCCTCATGGACTACCAGTCCATCAAGCTCATCTACTTCCTGCTGGATGTGATTGCCGTGCTGTCACGCCTGGCCTACATCTTCCAGGGAGAGTACCTACTGGTGTCACAGGTGGATGACAAGATCGAGGAGGCAATCCAGGAGATCAGTCGGCTTGCAGACTCCCCGGGAGAGTACCTGCAGGAATTTGAGGAGAATTTCCGAGAGAGCTTCAATGGGATCGCTGTGAAGAACCTCAGGGTGGCAGAGGCCAAGTTTCAGTCTATCAGGGAGAAGATCTGCCAGAAGACACAGGTCATTCTGGCTCAGAGGTTCGACTCCCGAAGCCGGGTCTTTGTGAAGGCCTGCCAAGTGTTCGACTTAGCCGCCTGGCCCAGGAACAATGAGGAGCTTCTGAGCTTCGGCAAGGAAGATATGGTTCAGATCTTTGACCACTTGGAAGCCATTCCTGCCTTCTCCCGGGATGTGTGCCGTGAAGGGATGGACCCCCGGGGGAGCCTGCTGATGGAGTGGAGAGACCTCAAGGCTGATTACTACACCAAAAATGGCTTCAAAGACCTCATAAGCCACATCTGCAAGTACAAGCAGAGGTTTCCGCTCTTGAACAAGATCATTCAGGTCCTTAAAGTTCTCCCCACCTCCACTGCCTGCTGTGAGAAAGGCCGAAGTGCCCTCCAGCGGGTCCGCAAAAACCACCGCTCACGCCTGACCCTGGAGCAGCTCAGTGACCTGTTGACGATTGCTGTGAACGGACCACCCATCGCCAGCTTTGATGCCAAGCGAGCCCTGGACAGCTGGTTTGAGGAGAAGTCTGGCAACAGCTACACACTTTCAGCCGAGGTCCTCAGTAGGATGTCTGCCTTGGAGCAGAAGCCCATGCTGCAGGCTGTGGACCATGGCTCTGAATTCTACCCAGACATGTAGGGGGGCTGCGCTCCAGAGGCCACAAAGACGGTGAATATTTTTTTAATCTATACTCATAAGCTTTGATATATTATATAAATATATATTATATTATATTATATATATATAAACCCACACTGAAATTTTTTTAAAAACTAAGTTAATTATGTCCACCAGAAGCCACTGGCAGCTTTCAGAAAGGAGCAGTGTTGGCAACTGACTTTTGTCTCCGCACTTGGCAGCTGCAGCCTACACGGCAACCCATCTTCACTCACACAAGCGTGTTACGGGGCCACACGTGTTCCCACCCAACAGTCAAAGCGGCATAAGCTAAATGACGGTTCTCTTGTCACTTGTAGGTGACTTGTTCTGTTTCTGTTCTCATGTATTGGTTGAGGTCTGGGGGTTGGGTGCTTGGCTTCTCCTTTTAGGTATGGTTTTATGACTGGGGGCCTCCGTGGTCTCCACATTGGCATTCTGGTCTAGATACACTACATCGGGGTTTTCATGGGGATGAATTGGATTTCTGGACTGGACTATCAGGTCTTTCTCCCCTCGCCTGACTTTAGCTTGGGAGACCTTTCGTTTTTCATTTCCTGATTGATCCCTTCCCTCGTCCCTCGTCCCACGTCAAATGCATCTCCCTCAACTGTGAGCCCACTCGCTCCCCCATGTCACCTCTCCCAGCCCCATGTCAGTTCCTTTCTTCCGGCCTCTGGAGTTTAAAGGTATGAGCTGTTACACTGAATGCAATTGTTTTTTCACATTTGAGCTTGAAATCTTGGGAGGGGACGGAAAGGTAAACTTTATGCCTCCCCCTCCTTTCCAGCCACTGGGGGATAAAGTATATACGTCCATTTAGATCTTGGGCTGTTGGGGAGACAATGAGCCAAGTGATCTAAACTCCAACAGGACCACATTTTATTTATTTTTTTTTTGGCTAAAACCAGGTAAAATGAAAAGTGTATATTCAATTTTCACATTTTTTTTGTCTTTATAATTAAGGAATGTGTTGCGGGGTTTGTGTTTCTTCTCGTAATCAAGGAGTAGCTGTTTTGTAGTTCAAGGGCGGAATCTATCAATGCAAGTCGTGCCCTGGGCTACAGAGAACTCAGAGAGTGCCTAGAGAGGTTGTTCCTTTGCAAAAGGCTGACGACCTGCTCCTCAGCCTGGCAGGGAAGTCACAGGACACCAGGCAGGGTTCTCTGCCTCTGAACTCTTCCTATTTTGAATAGAGTTGAGATGTCCTATAGAAAAGGAGAAAACAGAAGGTGAGGCGGGGTTCTCAAGGTACAAGCATGTATACATACTTACACACACATACATATACACACGCACACATACACACATACACACACACACATATATTTCAACTACATATAAGCTTTAGAAATGCCTCTTGCCTCCCCCCATGGGGTGGGGGCAGACAGTGGTTTAAACAAGAGGAGCCTGACCAATGTTCATTTACCTACCAGTATACCTCGCGAAGAGTTTTCAGAAATGTGCATGAGCTGTTTAAAACCTTCTCTGCAGTTTCCACATCCGACCTCTGCAGTCAGTGCAGATCCCAGAATGTGGATACAGGGTTGTCTTTGGGGAAGGGAGGAAGATCTGAAGGACCTGCCCGTGGTCAGTTCTGCAGAGAACTGTCCCTCTCCTTCAGTGGGGCACTGGGGATCCAACCCCATGCCCTCAACCTACCTGGCTGGGTCTATAAGTATGTGGTAGCTTTCTTCCTTCTGGGTTCGTCTCACCTCTGAGGCCTCACGGAAATGTCATTAACACTGAACATGTTGCTACCCTTTCCTGGTTCTGCAGTCTGCCCGTCCTCCCTCAGATCCTCCCTTTGCCTCCATGGTCTTGGTGCTAAGATAACTTTAGAATCATTGCTGCTAGCCAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008674:ENSRNOT00000066526:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.541 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF056999=Dimer_Tnp_hAT=WD(100=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
AGGAGGAGCATACGTCGTTCA
R:
GTGGCAGAGGACAACTTGGAG
Band lengths:
355-1395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]