MmuINT1010479 @ mm10
Intron Retention
Gene
ENSMUSG00000087385 | Frg2f1
Description
FSHD region gene 2 family member 1 [Source:MGI Symbol;Acc:MGI:3035485]
Coordinates
chr4:119530308-119533549:-
Coord C1 exon
chr4:119533313-119533549
Coord A exon
chr4:119531749-119533312
Coord C2 exon
chr4:119530308-119531748
Length
1564 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
AACACAGTTTGCTTATACAGGAA
3' ss Score
5.72
Exon sequences
Seq C1 exon
CTGTCCTGATGACCATTGCTGCTCAGGGTAAAGGCTGTTCCATCTGCAGCAGACCCAGAATGGAAAACATGTGCAGCAAAGCCACAGCAGACCTGGGAAAGACCCAACAAATGAGGACAACCACCCATTGGACCACTGAGAGAGAGCTGAGAGTCACGGCAGCAACGTAACAGAGCTTATACAGACTGTTTCTGAACCCTTTTCTGGAACGTCTTAAAGTGCTGGCATCCTTTCCAG
Seq A exon
GTAAAGAGATTGTCCGGGGAATATTACAGAAAAAAGAAATAGGACATAGCAAAATTAAATTTGATTTTGATCTACGGGCGATAGCGGGCCTTTTTTTTTTTTTTTTTTTAAAGATTTATTTATTGATTATTTGTAAGTACACTATAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTCGTTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCAGATAGCGGGCCTCTTTAAGCCTTGTTGTGCTCCAGGACCTAGGGAAGTAACGCTGAACTTTAGAATTCAGTCCCTGTTTTTGAGACAGACGATGCCCCCTGTCTCTAAACATGGTACCATCATTGTACCTGGCACCCGATAGGCAGTCTCCATATTTTTGTCAAACTAATGTTGTATAATGATCTAGACCTGTAACTTGGATCTCCTAACTCACTGCAAATGCTCTTGATGTGCTACTGTTTGTTGCCAACTTGGGCTAGGGGATTGTTGCTCTTTGTTTGTTTTTTTCTAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTCTATAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCATGCCCGGCTGTTGTTCATTTTTTTATGTTGTATTTTTTATTTATTTAAAAGCCACACAAATGGAGAGTGGGACAGGGGCTCTGGAGGCCTGGAGTGGGGAAGAGTTCATTAAAGGCACACACATACATCCTCCCAGGGCATTAAGAGCTGTAGAAAACGGGGGGGGGAGGGGGGGTGTTCCAGAGAGCTTGGTAATTGGCTTAGTAGAGTTGATAATGGGACTGGACAAAGAAGACATGGAGGTTAACCCTAAACTCAGATACATCAGGACAGAGAGTCACAAGGCTTAACATTTCCTAGGTATCTTCAAAGAGGAAGGAGCAGTGACTTAAAGACTTCTGTGGTAGGCTAACCCATACCCTAGAATGTGTGAGGCCTTTAGTTCAATCCCTAGTATTGAGATAGGGTTGAGGGAAAAAAATACTTCCACAGGATATTCTTCATGCAACCATTGAGAGTATGGCTGAATAAGCCTGGCCTAATCTGTGGATGAGTCCCCCAAAGCAAGAAGAGATTCAACCTGTTTATTACTGTTTCCTTAAAGAGTCAAGGTACTACAAAGATAAAAGCAGTAGCTAGGGGGCAGTATGGCATAACCATGACCAAAAACATGGGCTCCCCATCTACAGGTAAAATCAACCTGGAGATCAGTAACATTAGTTGGGCGATTTCTTAATTTCTCTTAGCTCAATTTTCTCATCTGCAAATTGAAATAATAATAGTAGCCGCTGGATAGGTGCATGGTGAATTAACAGAAACCACACTGTGAGTACTAACTGTTCCTAGTTCCTTGTTTCACCCCTAGAGGAAGGAATTTAATCTGACTGAGGCTGAGGGTCTTAACACAGTTTGCTTATACAG
Seq C2 exon
GAACATTTGAGTTTAGCCTTGAAAAATGAATGGGAGCTTGAAGCAAGACACATGGGAGAGTGGTTCCAGGAATTAAAGGCCCAGAGTTGGAAGGCCTGCTTCTATTTTGAATCTCTAAACTGGGAACACACACCTTTAATCCAGATCTTTGGGAAGACCCACCTATAATCCAGGCCATGCCTTCTGCTAGAGGCCTTATAAAGAACATGAAAGATGGAAGCCTCTGTCTTTGCCGGCTTGTTCTCCCCTTGCTAGCCAGTATCTTCCCCCACTGGCCTTGCATCAGACTTGATTGGGATTCCAGCATATAGTGAAGACCACCTTAGACATCCAGCCTTGTGAAATAAACAACTACTGGACTCTTGGATATTTTGTTCACAAGCAACCACTGTTGGATTAGCCAGACAACAAGCTGGAAGAAGAGAAAGCCTTTCAGTTCAACCTGAGCATGGATTCAGAAACACCCCATCCAGGCCCTTCCTGTCAACTGCTGGACCTCCCCACTGGACCACAGACCACCTCTGTCAGGACATTAGGATCAGAACCAAGTAAAAATGAGCAGAGGTCCAGCCAATCAGACAGCAATTCCAGAAAGCACACTGAAGAATCAGCTCAGATGGTGGAAACACCCAGGAAAAGAAGACGCTCTTCCAAGGACTCCAGCCTGGTCAGAATAGGAAATGAGGGCAGCTTGCATGGGAAAAAGAGACACAAGACTTCAGTAAAGAAGACTGAGCCAAAAGCCAATGGTCACCAGGATGGATTAGCCCATTGCCCAGAACCTCAGGATACAGACCCACCACCCATTCGGAAGAGCCTGGTGAGCTTTCTGCGGGGGAAGTCTGAGGAGATTTATAGAGACACAGTCCAGATGCAGGCCCAGAAGCTTGGCTCCCTGCTCACCCCTGAGCAGCTCTCTCAGCTCAGACAGCTCTCAGAGTCTCTGACTGCCATGGTATACAGCCTTCTACAGCATGGCCAACCAGGAGGCTTTGCCTTCCCTGCTGAGGGCTGGCTTGTCCCAGCCCCCATGGCTGCCCCTCAGGAGCTGTCTGGCAAGGAATCTCAGAGTCCTTTGATGGAGGGAGGAGAGAAGATAACAGATCCTGCCATCCCATCAGACAAGTCCTGAGCCAAGGCCATGAGACCATCCTAAGCAGAGTCACATCTCGAGACACCAAAGAACCGTTCCATCTCCCTGTCTACACTGCCTGTGGCACTCACCCTCTCTGTGTGAACATGTAACAGGCACATCGATGAGAAGAAGAGTTTGAAATGCTTATCTGGATTATGAACTGTGTTTCTCTGGGACCTAAGATTCAAGTGCTAAATGCACAGTCGATCCGTGCTTCCTTTGGATATTTTGCTAAGTGTGTGTTAGATTTGTATACTTATATTGTAGCGTGGCAAATAAATACTGATTTACCAGAAAAAAAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000087385:ENSMUST00000079611:3
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:
PF153151=FRG2=WD(100=70.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
TGGACCACTGAGAGAGAGCTG
R:
GGCAAAGACAGAGGCTTCCAT
Band lengths:
343-1907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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