MmuINT0065321 @ mm9
Intron Retention
Gene
ENSMUSG00000039735 | Fnbp1l
Description
formin binding protein 1-like [Source:MGI Symbol;Acc:MGI:1925642]
Coordinates
chr3:122261938-122263879:-
Coord C1 exon
chr3:122263751-122263879
Coord A exon
chr3:122262085-122263750
Coord C2 exon
chr3:122261938-122262084
Length
1666 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTGAATTCTGGATTATTAGCAA
3' ss Score
-0.66
Exon sequences
Seq C1 exon
GCCAAACAGCAGTTGAACCTTCGTACGCATATGGCTGATGAGAATAAAAATGAATATGCTGCACAGCTGCAAAATTTTAATGGAGAACAGCACAAACATTTTTATGTGGTAATTCCTCAGATTTACAAG
Seq A exon
GTAAGTTTAGTCTAGTTGAGAATTTTTTTGAGACAAGGTTCCACTGTTTATCTTCCCTGGTTGGCCTGAGCTCACAGAAACCCACCTGCTCCTGTTTTCCCAGGGCTGGGGTTAAAGGCATGCACCACCATGCCTAGCTAAAGAGTTAATTTTAAGTTAGAATTTTTTTTTTCAGTTTGGAAATAAAACCTAGCGTTTTACATGACGTAAGAAAGCATTTTGCATGATGATACAGTTCCAGTTCCAAAACTCAAGTATTAAACCTTAGAAATCAGAATATTTCTGAATTCACTAGGTATAAAATTTACTGTTGATAAATTTTGTTCTAATTGTATGTGAAAAGTAGATGTTATTATTTTAAAACCACAGACTTTTCTGTATTCTGGATTCACTAGGTATAAAATTTACTTTTGATAAATTTTGTTCTAATTGTATATGAAAAGTAGATGTTATTATTTTAAAACCACAGACTTTTCTGTATGTTTATTATTAGTGTTATTGTCTTAGTTTGGGCTTTTATTGCTGTGAAGAGATACCATGACCAAGGCAACTCTTATAAAAGCAAATATTTAATTGGGGTTGGCTTACAGGTTCAGAGATCCAGTCCAATATCATGGTAGGAAGTATGGCATCATGCAGGCAGATTTGGTACTGGAGGAGCTAGGAGTTCTACATCTAGATCTGAAGGCAGCCAGGAGACTAATTGCCACACTGGATGGAGCTTATATATAAGCTCATGCCTTCAGAGCCTGTGACGACTTTCTCCAACAGGGCCACACCTCCTCCAACAAGGCCACACCTAATAGTGCAGCTCCCTATGGTACTATTATGACACAAAAATTCAACTTATAAGTAAATTACCTATTGTGTTTGGGGGCCACTTTGGAATTTGCTTAGAGCAGTCTAGTTGTTTTGTGATCAAACAAAGAAATAAAAAGCAAAGGTCTCAAAATAAGACCCCAGACTTTAGAAAGTAACAACAAAAAGTGATCTGAAGTAGAGTTTGAGAAGCTGAGGAGAAAGGCCAGTACTGGCTGAGAGCAAGGGTGCAAACATGACTTTTAACGTACTGAATGTACCTGTCTTAGCATATTTTCCATAGTGAGTTTGGACGAGGGGGAATTTGGTGATGTGACTTACTGTTTGCCTTTCATGCCCTCAACTCTGAGCTGCAGTCTGTAGTAAGGTCTGGGTACCTGTTTGTATGCCATCAATTGTGATCCTTCATCCAGCTAGGTCTTAACTCAAGTACTCTGAACCAGTTTAAGGAGTACATCTTAGACTTGTGTCTTATGGATAATTGCTTTAAAAGAGGGGGCAGGGATTAATGCTAGAGTTTGGTGTTTAAATGGAACATTTCCTGAAAGCATAAAACTACCCAAATTTAAGAGAAAAGGGTAGGGGAGGTGTGGAGCAAAGACCTGGTTGCCAGTTGTTGATGTTTTAGATGATTATTATTAATATCAGTAATAAAAGCCTTGTATTTTCCTCCTTTTATTATTTATTTAACAGGCTTTAGATTGTAAGAATTATTAAGTCTATATGGCACCATTGAAAGGTCTAAAATAAAAGTGTAATACGGAAGAAATATTTTTGGGGAGGTCACTAATGGTTCTACAGAATAGAAAATTCAATTTCCCTCCTTGTTTGAATTCTGGATTATTAG
Seq C2 exon
CAACTACAAGAAATGGATGAACGAAGGACAATTAAACTCAGTGAATGTTACAGAGGGTTTGCAGACTCAGAACGCAAAGTTATTCCTATCATCTCAAAATGTTTAGAAGGAATGATTCTTGCAGCAAAATCAGTTGATGAAAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039735-Fnbp1l:NM_153118:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAACAGCAGTTGAACCTT
R:
TTCATCAACTGATTTTGCTGCA
Band lengths:
270-1936
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: