MmuINT0130156 @ mm10
Intron Retention
Gene
ENSMUSG00000043102 | Qrfp
Description
pyroglutamylated RFamide peptide [Source:MGI Symbol;Acc:MGI:3630329]
Coordinates
chr2:31806166-31810580:-
Coord C1 exon
chr2:31810407-31810580
Coord A exon
chr2:31808919-31810406
Coord C2 exon
chr2:31806166-31808918
Length
1488 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TCTCTCCCTCCTCTGCTCAGATG
3' ss Score
9.79
Exon sequences
Seq C1 exon
ATCCTGGGGCTAGGAATGCATAGCAATCAGGCAGGCTGGGGCTCGCCTCTCCAGGGAGCTTTATAAAGCGGGGGAACCCCAGAGCCATGCCTGCTGGACCGGGACCTGAGCAGCTCTGCCTGACAACTGGGGTCCAGGGACTCACCTGCCCTTCTTAGAGCAGCCCTCAGCACA
Seq A exon
GTGAGTACAGCAAGGGACGGGAGGCCAGGCTCTCCAGGTGAGCTGGGTGCAGGCGGGTACAGCCAGCACCACGAGCCACACACCAGGAAGGGCGGGTGTGTGGGAGACCCGCAGCTTCATCCTCAGCTCAAGTTCCACCAGAGCCAGCCGGCCCTAGATGCCAGCCAGGAAGTATTAATCTCTGGGGATAAAGACCATTCCTGGTCCTCCCCTTCTATGGGGAGAAGGGAATGAGACTTGTCTGTCCCATGTGGGGGGCCCTGCCCTCTCCACCCGTGCCTGAGGAAGCCCCTTTAGCAGCAGCAGACTGGAGGCTACTCCAGGCCCTGGGGACTAGGGGGCTTAGCAAGCTGGATTTGGGTAGAAAGCAGGGCTGCTTTTGTTGTTGTTTTTGAAGCTTTCTGGCTGCGCTCACTTCTTTGAAATGTTTTCAAGGGAGCTGTTTCTGGAAAGAAGTCGTCCCCCCTGTCCCCCCCCCTCCCCCCTCCGTCCCCCGCCACTTCCAGCTTCAGGGGCTTCCTCAGAGGATGAGCCAGCTCGGCTCAGCTCACCCATGGTCACTGCAAACACAAGCATCCTCTGTGAGGGAAGGGAACAGTTCCCACCAAGGGATGTGGGGGGGGGGACCTCGAGACAATGAGACAGGTATGGGGGCACAGAGTAATGAGGCTACCTTGAATTCAGCTCTCTTTCTTATAAAGCTGTAGGACCTAGGGCAAACCCTGAGGCTCTCTGTGCCTGAGGTCCTAGGGGGGGTGGCCCCGGGGTTGGTGGGCTGGATGGCTATCATCAGGAAGCAATCATTTCCCTAGAGACTGGCACAGGGAGAAACCACACTGACATTAGAGCCCAGAGCTGTGTGGTGGGGCAGCGTTTGCTGTAGACAGACTTACTGTACAGAGAAACCCATTCACCAGAGCCTGTCCTGCCCAGTGGGAGCTCAGTGGGTGCTGGCTGTCCCCAGCCTTGCCTCTAGCTCCTCCCCAGGTAGGAGTTTGACTTACACAAGGGCCACCAGGCCCATTTCCCCCTCCCAAGAGCAACTTGTTCCTGAATTAGGGAGACAGTGGGGTTTCCCAGCAGAGCTGCTAGACCTATTCATTATCAAGTTGAAAACACGGCAGCTTCTCACTCTGCCTACGGCCCAAGAGTCAATAATTATAATAGAAAATTGAACCCAAATGCACACAGCCCCGAGGGCCACCCGGGTACCTCTGCAAGCCAGCTGGCAGCTCTGGTATTCCAGTACTGAGCCACCAAGGCAGGCAGCTCCCCGGCTACAGGTGAATAGGAATCAGACTAATTGGTCCAGCTGGCTCCCGCGGTGGCTACGACAGCCTGGTGTCCTGGGTGCTAGGGAACCAGGCTAAGCACAGTCAGCAGCTATCCCTCCAAGGGCTGCCCAGACCTTGGGAAGCCTGGGGCCAGGGATTGCATGTGGCCAAATGCTGGCCACTACCCCCTCCTCTCTCTCCCTCCTCTGCTCAG
Seq C2 exon
ATGAGGGGCTTCCGGCCTTTGCTTTCCCTACTTCTCCCTCTGAGTGCCTGCTTTCCCCTGCTGGACAGAAGGGGACCCACAGACATCGGTGACATCGGAGCCAGGATGAACTGGGCCCAGCTGGCTGAGGGACATCCCCCCAACTCGGTTCAAAATCCACAGCCACAGGCCCTGCTTGTGGTGGCCAGGGAGCAGCAGGCCTCCCACAGGGAGCACACCGGCTTCCGTCTAGGGAGGCAAGACGGTAGCAGTGAGGCCGCAGGGTTCCTGCCCGCCGACTCGGAGAAGGCCAGCGGCCCTCTGGGGACTCTGGCAGAGGAGCTGAGCAGCTACAGCCGGAGGAAGGGAGGCTTCAGCTTCCGCTTTGGACGGTGAGGGCCTGCGTGGACTCTGCCCCGTCTGACCGTCTACTGTTGCCCCGGCCCCAACCTCAGGAACCCAGACCCGGAGAGAGTATCACAGTGCACTAGTGGTGGTGAATAGGTGTGTTCACATTTTCATTTCCAACTTTGCTAAAGTGAGAAATCTGGGTGGTGTTCAAGAAAAAAAAAAAAAACCAAACAAACAAACAAAAAACCAAAATGAGCAATCCCCTCTCCTCCCTCCACCCCACCCTACTCCTGAAACCCTGCACACAGGAGGACCAAGCTTGTCTTGGTCAGTAAGACAATGTGTCCTTATCCTAGCCCATGACTCGGGCTGCTGTCTGTCTCAGCCTCCGACTTTCCCCAGTGGTCTGACTGGAGCAGTCCCCGGTCCCCAGTGGCAGCGCATTGAGGCTGTGCTGGGGCCGTGGATACAACAGGCCTCTGGCTCTGTTGTTCATTTGTCGGTAGGTGGACTGAGAGATTACAGCTGGAAATCAAAGTTCTGACAGTCTCCGAAGGGACACTGGTAGCTGACATCTGAAGGGGCGCGCTGTGAAAGAGCGCACTCCGCTGTGTATAAAATGTGAGTCTGAAAGTAGAGAAATGAAGGAGAAGAAAATAACCCAGACACAAACAAACCCAAAACAGTCAGTGTGTTCTCCATCCCATTAGCACAAGACGCCTCTGGCAAGAAAGCCAGCAGTGGCACCAAGCTGCCCACTGAATGGCCTGTGCATCCCCTCTGGCTGCCCATCGCCCCTTGTCCATGGTAGTATTAGCCAACTTAAGGGCCTCATGGGGACTGAACTCTGAAAGGGTGGGGTTTTTTGTTTGTTTTTGTTTTTGTGCTAAGCAAGGTTGAGTTTCAAATACCCAAACTAGGAATTGCCATGTGTATCTTTTGAAATAAAAGTTGTAACAACTGCAGCATCATAATGGGATGCTGGCCTCTTCCTTCCAGGTCCTCTGGGCCCCAGAAACTTCTTTTCTTGAGTTCCTGAAGCCTTCACTTTGGGGAGATGGAAATCAGGCTGCCTGTACCCCGTACACCTCTCCGAGCAGCCCCTTAATTGGCAACTGGGCGAAGGGAGAGAAGGAACAGGCTGTTTCCCTCTCCACTTCCCTGTTCCCTATGTTTCTCAGAACGAGTGTGAGAGGGAAAAAAAACGACATCTCCACCTGGGGGAGGCAAGGGGAGGTGTGTGTAGGGGGACAGGCTCAGTCTGGGCTGTGTGCCGGCCTGGGGCCAGCAGAACATCCCTTTCAAAGGCTGCCGAGTCTCCTACATCCCATCCTGGGTCACACACAGCCGTCAGAAGCAGCTCACTCCAGGGCTGGCTGTGACTGCTGAGATGAGAACTTATATTGATGTTTCTATGGCAACATCTCCCCTCCTCCTTGCGAGTAGCGGCTTGCCCCCGTTCACAATTGAATAATTTTCCATTGAGCTGTCACAATTAATTGGTGGATTTTTATTAGCCTTTTAGAACCACACTGGGCCAGGCCCAGCTTGGCACCTCACAGTATTCTGGTGTTTTCCATTCTATTAGTGACTTACGTCCTCAGTAGCAGCTTTCAATCCTCAGCAGCCAGGAAGCCACTTCATTAAGGTTGACAGATCAGAGCCACAAAAGGACCATGTTGACTGGGGAGCAGGGCTGGGAGGTGAACTGAGGAGGGGGCCAGAGCCAAACACCTGACACAGTGGTGCACTGACTCCCCCCAGAGCCACCTTGGGCTCCCCAGGGGCCTTGCACATGGGTCCTGGGCTGCAGTCACAGGGACAAGACAAGCACACTGTAAGGCACATCACTCTGCCGTCCTTACCATCTCAGGAAGATGTGACGGAGGGTGTGTCCAGCAAAGGAATGCTACTGCTCTCCTCTAGTGTGGACATCATGGGCACCACCACACTCCTTTGGGACAGTCCTGAGAACACAGGTCATCTGTGGACACAGAGAGGTGGCTGTGGTTTCCCCAGCTCCCTCACCAGCCAGGGATGCCCACCTGCTTCTGTGGGGCAGTACCCTGGCTCATTCATACACATATGAGACAGGCTGAGACAGAAGACCACAAGCCAGGGCTGAAGGGCACCCTGGAGCCTGGGCCCTGGCACCCACTCACGCCATGAGGCTGCACACCCTCACTCACTCTGGGGGTAGGTAGGGCTCATTTTGAGTTTTCGTCTTTTTTGATGCTGAGGTTCCAGCTCAGGCCCTCATGCATGCTAGGCAAGTGCCCTGGCACTGGGCTTCACCCCGAGCCTGGCAGGTTCTTAATTTAGCAGGATTAGATTAACCTCGACGGAGAGGGCTGAGATGAAGGGGGAGGCCTTCAAAGGAACGCATCTGCTGTCATTACCTTTAATCATTAAAAGAAAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043102:ENSMUST00000057407:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF111093=RFamide_26RFa=WD(100=99.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTGGGGCTAGGAATGCAT
R:
GCCTGTGGCTGTGGATTTTGA
Band lengths:
344-1832
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types