MmuINT0065116 @ mm9
Intron Retention
Gene
ENSMUSG00000036053 | Fmnl2
Description
formin-like 2 [Source:MGI Symbol;Acc:MGI:1918659]
Coordinates
chr2:52977398-52979123:+
Coord C1 exon
chr2:52977398-52977478
Coord A exon
chr2:52977479-52978993
Coord C2 exon
chr2:52978994-52979123
Length
1515 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGT
5' ss Score
4.96
3' ss Seq
ATGTCCCCTTTTGTTTCCAGCTC
3' ss Score
9.51
Exon sequences
Seq C1 exon
ATCATCTTGGCCCTTGGAAACTATATGAATAGCAGCAAACGAGGAGCAGTCTATGGATTTAAACTTCAGAGTTTAGATCTG
Seq A exon
GTGTGTGAGCTAAAAAGAACTACGGGATCCTTGAAGGACTCAGCGGCAGAGATTAAGTTGTGGAGGAGGGCTTCTATTCTGGGAGGGGCTAGGGGAGGGGTTGGAGGAGGAACCTCTTATTGCAGGAGGGTGGTTGGTGTAAATTTTCTGAAACACCATTTGGCAGGAAGGACCTTTTCACCCAGTGTCCCATTTCTAGGAGTCTTTTCTCAAGAAGCTGAATTACGAATGCTGCATGTTTATAGCAATAACCTCAAGTTCCAGTGTGATAAGAAATGACTTGGAAGACAGCTAATGGAGTGAACCGTTTAAGCCAAATTTTTAAAATTGGGTATACTTTTCAGACAAATAGATAATTTTGTCTAGAAAAAATAGGATATGGTTACACATGTATACTTACTTTCTACTTTTCTGTATGGACAAAGTACAGACCCTTGCAAAGTTATCCTTCATGCGTCCTGTCCAGGCTGTGCAGGCCTACCTAGTGTGGCTTCCAAGTCAGGGAAGGCATAGTTAATTGATATTGTCATCACACACACACACACACACACACACACACACACACACACACACACTAACACACACACACACACCATAATCTGATTAATAGTATCTATGTAGGATTTGTCCCAAGATCTTCCAGGATCTTAAACATCTCAGATACTCAAGTCCTTTCTATAAAGTAGTATATTCTGTGGAATTAAACTAAAGATGACCCTTAACTTTTAAATCATGACAGGTTTGCATATAATACCTAGTACTTATGTCATGATTTGCAAGTAATTGTTTCATGGTATTATGTATCAAATAGTCACAAGAAAAAGTCAGTACTGACATCAGCTTGTTTTTTAATATTTCTGTCTCAGGTTTGTAAAGTTCACAGATGCAGAGTACCTGGGCATCCAGAGGGAGGCAGCTGTCAGAATCATCAGAGCTAGGGACTAAGGGAGAGCCTGCTGCCCCTGGAGCTGTTGAGCACACTTGCTGGCTCCACCTTCCACCTCTGTTCTGGTTCTTCTCATTGAAAAGTACCAACAAGGGGGTCCTGTAGAGCTAGGGTGGTAGGTGGGTAGCAGCTGCAGGGACAGGAGAATTCTTAAAAATCTATATTTTTCAAGATTTGTTTACTTATTATGTGTAAATACACTGTAACTGTTTTCAGACACTCCAGAAGAGGGCGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATATGGTTGCTGGGATTTGAACTCAGGACCTTCAGAAGAGCAGTTGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCTGAGAATTTTTATAAGAAAGATAAAGATCTGAAGTATTCCTAGCTCAGAGTCTACTCTAGCATTTAGACTCTCTTAAACACTCTCAGGCTGTTTAAGCACCAGTGGGCTGGCTCTCTACAGGGCACATTGAATCTTGAATCTCCTCTTTTTCCGGCCCTCCGTTATTGACTCTGGATGCTCGCACCTTGTTCTTGCACCTAACCCATGTCCCCTTTTGTTTCCAG
Seq C2 exon
CTCTTAGATACAAAGTCGACAGACCGAAAGCAAACACTGTTGCACTATATATCAAATGTGGTAAAAGAAAAATATCAACAAGTTACTCTGTTTTATAATGAGCTTCATTACGTGGAAAAAGCTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036053-Fmnl2:NM_172409:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.002
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(7.1=100)
A:
NA
C2:
PF0218118=FH2=FE(11.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCTTGGCCCTTGGAAACT
R:
TGCAGCAGCTTTTTCCACGTA
Band lengths:
209-1724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: