MmuINT0093768 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28090160-28091238:-
Coord C1 exon
chr7:28091086-28091238
Coord A exon
chr7:28090570-28091085
Coord C2 exon
chr7:28090160-28090569
Length
516 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
ACAGTCTTTCTACCCCCCAGACG
3' ss Score
8.09
Exon sequences
Seq C1 exon
GAGCCTTGTCTGAGCCCTATGAGGGCCTAGAGGCCGAAGAGTGTGGTATCCTGGATGGCTGCCCTCACGGCCGCTGTGTGCGCGTTCCAGAAGGCTTCACCTGCGATTGTTTCGATGGCTACCGCCTGGACATCACCCGCATGTCCTGTGTCG
Seq A exon
GTGAGGAAGGGGAGGAGAGAGAAGGGTGAAATAAAAGCAAGTTTGACCAGATGGTGATCAGGAACCTCCAAGAAAGAACCTCATTACAGACAGGGGTCAGGCCACCTGAGAGGGAGTAAATTAACTCTTGCTCAGGGGTGGCGCTTGCTCAGGGGTGGTGCTTGACTGAACAAAATGGGGTCAGAGAACCAAAAAAGCTGAGCTCCTGTTAAGTGGCAAAGGAGGGTTTGGGACTATGAAAGGAATCCTGTAGATGTTATTTGTGTTAGTGGTGAAACCCAGGGCTTGTTGCCTGCTAGGTGAGTGGTCTACCACTGAGCCACGCCTCCAGTCCCTCCATCTTGCAAGCCAAGGTATAGAGATGATATGCCACCTGCTTAGGCTCACACAGCCAAGAGGTAGCAAGTGATATATTACAAGCCACAGGAAAGGCCCCACATCCATGGTCCTCTACCCCAAAAGACTGAAAGACTGGCCTGATTCCTGGACATGAGTAACAGTCTTTCTACCCCCCAG
Seq C2 exon
ACGTCAACGAGTGTGATGAGGCAGAGGCAACCTCCCCACTCTGCGTCAATGCGCGCTGTGTCAACACTGACGGCTCCTTCCGCTGTATCTGTCGTCCAGGATTTGCTCCCACGCATCAGCCACATCACTGTGCGCCTGCTCGACCCCGGGCCTGAGCAGGGGCGCCAAATCTCCCACTATACCTGAGCACCGGGAGCTTCCAGAGCACGCCTGCCTCCCTCCCTCTAGTCTGCATGTGTGCAAGGATGTCAGACAGTCTCGACTTAGGATGGACAGACACAGAGGGGTGCCTTCTATGGTGCCAGCCTGTCATGCCCAGTCCCTCCCACCAGTGCCCTGGGCCTGTCCTGGGTCCCCTGACACATTTCTTGCCCTTTTATACAATTTTCAATTAAAACACCTATTTTGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_001113549:29
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=65.4),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.6)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTTGTCTGAGCCCTATGA
R:
CGGTGCTCAGGTATAGTGGGA
Band lengths:
344-860
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: