MmuINT0118723 @ mm10
Intron Retention
Gene
ENSMUSG00000020387 | Jade2
Description
jade family PHD finger 2 [Source:MGI Symbol;Acc:MGI:1924151]
Coordinates
chr11:51813455-51818628:-
Coord C1 exon
chr11:51818497-51818628
Coord A exon
chr11:51817701-51818496
Coord C2 exon
chr11:51813455-51817700
Length
796 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TCCTGTCTCCCATTCATCAGGTC
3' ss Score
8.24
Exon sequences
Seq C1 exon
AGCCTTCTGGGAGGAGGTCAAAGGGCAAGAAGAATGATTCAAAAAGGAAAGGCCGAGAGGGTCCCAAGGGCAGCAGCCCTGAGAAGAAAGAGAAAGTGAAGGCTGGGCCCGAGTCTGTGCTGGGGCAGCTGG
Seq A exon
GTAAGTGAGGGGCCCTTGTGTCCTGGCAGACGCTGACTTTACCATTTTCAACTTCACCCAGAAGAGGGCCAAGCAGCGTGAAGCAGAGACGGACCGCTTAGGCCCTTCCTCTTCCAGGGCTCACAGTGGCTCCGTCTCACGCACAAGAGATCCCAAGACACTCTGGCTAGATAGAGCTCTGCCAGCTCTGGAGCTGCCCTTGCCAGGGTGCTGGATGCCCCCAGAGGTCCCTGGAAATCACCTCTATGCTGAGTGGGCAGGACTACACTGCTCGCGAGGTCTTTATCCCTGTTCCACCCTTCCTGAGTCTCCACCGCTCTTTGTGCCTTGCCCCCTCAACCCAGCCACACAAACCTGCTGACCTTTCTTGAGCCACCCAGAGACCAAGAAAAGTGACATCAGGTTCCCTAGTCACTGCCACAATTTATCTCAGTAAAACCGGGCCCAAAACTGAAGGTCCTGGCCACCCTGGGAGCTCGCTCTATCAGGTGTTTCCTGCAGGCTGTTGGAGGCACTGCCTGTAAAGATGCAGCGCCCCCTGCTGGCCGGTCTGCTCTTGCCACTGAAATGCTTACTGTTTGAACAAGGAACTAACTCACCACTTCCTCCTTTCCACTCCACAATTTAAAAAGCTGGTCCTGGGGTCAGCCAACCTGGTGAGCAGGGGCTGGCCTCTGCTACTTGGTGGCACTGGTGGGATGCGTGGACAGAACAGGATGGCTTGCCTGGGTGGGTCGGTTGTCTTGAGCTCACACACCTGTGGCATCTCACCTGCCTCCTGTCTCCCATTCATCAG
Seq C2 exon
GTCTATCCACCTCGTTCCCCATCGACGGCACTTTCTTCAACAGCTGGTTGGCACAGTCGGTTCAGATCACAGCAGAGGACATGGCCATGAGCGAGTGGTCTTTGAACAGTGGGCACCGGGAGGATCCTGCTCCAGGTCTGCTGTCAGAGGAATTGCTACAAGATGAGGAGACGCTGCTCAGCTTCATGAGGGACCCCTCGCTACGACCTGGTGACCCTGCCAGAAAGGCCCGAGGCCGCACTCGCCTGCCTGCCAAGAAGAAACCATCCCCGCTGCAGGATGGGCCCAGTGCACGGACCACTCCAGACAAGCAACCCAAGAAGGCCTGGGCCCAGGATGGCAAGGGGACGCAAGGACCACCCATGAGGAAGCCACCACGGAGGACGTCTTCTCATTTGCCGTCCAGCCCTGCAGCTGGGGACTGTCCAGTCCCAGCAACACTGGAAAGCCCTCCACCACTGGCCTCCGAGATACTAGACAAGACAGCCCCCATGGCTTCCGACTTAAATGTCCAAGTGCCTGGCCCTACAGTGAGCCCCAAACCCTTGGGCAGGCTCCGGCCACCCCGAGAGATGAAGGTCAGTCGGAAATCTCCGGGTGCTAGATCCGATGCTGGGACAGGACTACCGTCTGCTGTGGCCGAGAGGCCAAAGGTCAGCCTGCATTTTGACACCGAGGCTGACGGCTACTTCTCTGATGAGGAGATGAGCGATTCTGAGGTAGAGGCAGAGGACAGTGGGGTACAACGAGCTTCCAGGGAGGCAGGGGCAGAGGAGGTGGTTCGCATGGGGGTGCTGGCCTCCTAATTCACCCAGGCCCTGCCCTGGTCCCCCTACAAGGCCTCAGCCCAATCACAACTGCCATTTCCAACTGCTGAGTGTCTCAGACCCACCACTCTGTCGTGGTTTTATTTTTAATATAGAGAGAGTTCTGAATTCCACCCCGTTGTCTTTCCTCTGTGCTGGCCTAGGACATTAGGATTCCTCCCGTGGCCCCGGCCACGGGGGACTATACCAGGTTCTATGTGCCACCCCGGTCCCAGCCCATGCCACATCGCTGGGCTTCTGGCTTGATGTAGACAAGGTGAGGGAGAGAGCTCAGGGCTCCTGCCCACTGCCATTGGGTGACACAGACTGTCGTTTGGGCATTATTTCATGGCAGATGGGCCATCCCAGGGCCTGCCCCGCCTTGTCCCCCCAGGTTGCACTGGGGTCCATTTTGGGTGGGGAGGTGTCCTGCTGCACTCCGCTGATCCGTAAGGAAGTATATAACAAGTGATACCCAGCCAGTCTATTCACTGTCACAAGCACAACGAGTCTCTATGAGAAAGCACTGAGGGGGCGCAGGGGGCCCACTGGCTCCTGAGTAGCCCACACCATCTGAGGCCCGCCCTCCCGCCCGCCCGCAACCCCTCCTCCCTTGCTGCTCTGTCCCTGCCAGTGCCCAGCCCAAGCAGCTCTGAGAAAGGGTTCCCTGGATCCTTCCTGAGCTGTGTTCTTTACTCAGGGGACTCCCCAAACGGTCCTCCCCGTGTACAGGTGGAGGGCTCCAAGGGAGGGCCAGTGCCCAGCCCGGGACTTGGGGCTCAGATCAGCCCACTGCAGAGAATCACTCTGGGGCTCTAACTTCCTTCTTTCTTCCTTTGGGGCCAGTCTCGGCCACAGTCTTGCCGTCTCCATTATGGAGCTGGCCAGACCAGACCGTTTGCCTTTTGACGTTTCCTAGTCCTGCTAAGAGATGAGCTTCCTCTTCGGTTTCCTGGTGGAAACATCCTTCCAACAAGTGTAGTGGGATCCCGGGGCCCAGGGCAGGCCGAGGCTGGCCTGCTGTGGCTGGTTGAATGTTGCTGGATCTTCCTGGATTACTCTGTCCCTTAGCGCCTTAACCCCTTTCCTTCCCTACTGTACGCCCCCCCTTCCTACTCCTTCCCAAATCCTTCCTCCTCCAAGCCCCCAGGTAGTACTGAAGAGTTTTGATGGAGTGGCCCCAGGGTGATAGATAGCTCAGGGAACAAAGGAATTCCGTGAAAACATTTTTTTTTTTCTTTTATGAATTACTCTTGGGTCACTTCTGCCACTGGGAAAGCCAGAACTTCTCCAACCAGAACCTTGCAAAAGTCCAGTGAACCAGTCGAATCATTCTGAGAATGCCAAAGAATCTTTTGACCATAATACACAGCACAGCCCGGACCTGACAACTGTCGACTTGAACTTCCTCTTCAAAGGAATTGGTTAGCAACAAAGTTCAGAGACTCGGTTATTGCACACACCTACAGAGAAAGGGCCCAAGGCCTCAGAGGAGGCCGCCGCTGCTGCTGCTGCTGTTGGTTTACGGTCCCTGGGCTGAGCCGCTGTGAGTGTGGTCCTAAACTTTGAGGACTCCCTCCCCCTTTTGAGGGGGGGAGAACCCTGACTGTGAATCCAGCGTGGTTCCCCCATTGCCACCACTTAGATACACAAAGAGCAAAACACACGGGACCTTCACCCACCTCGACTCCAAAACTATCAAGGTACGACAGTGAGTTTGAGCAAAATCAGAAGCAAAGATTAATGACTTCAGTTTGGGGATTGGACACACGTGTCTTATCCAAATGGACTCCGAGGGCGTGGGGTGGGCTCCAAGGATCCTGGGCATCCGGATGGCATCGGCTACCACATAGACTTAGTCTGCCTGCCCGTCTCGGTAGTAGTGACAACTCAGTCGACGTCGGCATCCCCCGCCCCGTCTCTTGTTTACTGCCTCTGAACAGACCTTCCTCTCACCTGTGCTTTGAGTCACTTCGGGTCGCAATTTCATCTGCTGAACTGCCTGGTGGTCTGACCTGTGGGACACGAAGGGCATGGGGGCTTAAAGAACAATCAAACGCTGCAGGGGGAGGGAGGGAAGCCCAGTTGTTGTCTGTGACCCCTTCAGTAGACCGAGCCCACGGCAGTCTTCATCCAGCAGCTGTCTCCACTCCTAAGATGTCCATCAGGCTGCAGGGAGGATGCGGATGTCCCATAACCTCTCCCTAGTTCCTCCCAGGCCACACTGTCTCGGGTGTAGATGGTTTTGCCACACTATGACCAAGGCACCTTTTCCAGGCCTGAGGCAATGCCCACTCTTGCCCTCACCCACAACCCCTCTCTAGAGAGGGAGAAAGGACTCTGTGACTCGTTCTGGCTAACGTACCCCTTCCACCTCATTTCCTCATCACAGGATACAGGCTAATGTGCAAGGAAAGTATTTTTCTGTATCATAAGTGTATTTTGAAACAAGTAAAAGAAAGATAGAATGCTCGTTTACTTTATTAAATGGGCTCTGATTTTGTGAAAGGCGAGAGAGTGAGTTAAGGGCCTCAGGTTTGTTGGAGAAGCCAACCACCCAGGTTCCCGGGCATGGGTGTCGGACTGTGTGCGTGCGTGTAGCAGAGTGCTGTGCAGGTGTATGTGCAATGCATGGGTACCCTATGAAACTTGTTGGGGTTTCTAGAGATTCAACTGCCTGATTCTACAGGAATATGGCAGCAGGTTAGACTTTGGGTTTCCTCACCGTTGTCATGTAAGGTCACCCTTTGCCCATACCTGAAGCTCTGCATAACAATCCGTGATCTCTGTAGTAAGACCCTTGAGGCCACTCTCCCGTGCCCTTGGCCCAGCTGGCCACATTGGCCAAAGAGCCAGAAGTGTTGGAGTCGGGGACCTTTGGTTGTTCTTTAAGCCGCTTCCTGCTGCCTTCTCCCAAGGATGCACGCTTGTGCTCCATCCAAATCATTTGGGGATGGTGGTGGGGAAGGTGATATGAATGTCACAGGAGGAGACACCTTCTGTCTTTGTTTCAAAGAAAGTGATGTGCCATTTGTTAATATACAAGAGAAATATTGAAAAAATATATTGAAAAGAGCAATTTTAAATTATTTTTGGCTTATGTTGCAATATTTATTTTCTTGTATTAGAGAAGATTTCTTTGTAGAGAAAAATGTATTTTTCATTACCGCAAAGACCTATTTCTCCTTTTTGTACATTGTCCTTGTTCGCGACCCTTAACGAGCAATAGAATGTTCGGTCACCCCTGCGTGGCCAGTGCCCACTGTGCCCTGCATGATTGTGTTGCTGCTGCTGCTGCTGCATAGTTTCTGGCCCCGTCCCGTCCTGCTCACTCACTGGGGCATCCGGATTGCCGGCCCCCACCAGGGTCTGTGTCTAAGGAGCCCACAGCACTCCTCATGTGTTGGCAAACTCGGTTAATAAAGCAATGTTCTCTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020387:ENSMUST00000020655:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.924 A=NA C2=0.894
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGGGAGGAGGTCAAAGGG
R:
CTTTCTGGCAGGGTCACCAG
Band lengths:
355-1151
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