MmuINT0093692 @ mm10
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:84804357-84806413:-
Coord C1 exon
chr12:84806300-84806413
Coord A exon
chr12:84804486-84806299
Coord C2 exon
chr12:84804357-84804485
Length
1814 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
TACTTGCTCCATCTCCACAGACT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GGGATGCCACTGGAAGACCAGCACCATCCTTGCCTGGACAGGGCATTCCAGAGAGTCCAGCAGAAGAGCAAGTGATTCCCTCCAGTGATGTCTTGGTGACACACAGCCCCCCAG
Seq A exon
GTAGCTGCAGCAGCCCTTGGAGGCTCTTTGTCCCCAATTCTGGGAGATGTGATTGCCCAGAACCAAAGTCCAGGGCAGGTCTGGGAGTGAAATTTCCTTCTTGCTTCCTCAACCAGATAAATAGTCACCAGCAACTCTGAGCTAGCTGTGGCTCTGGCTTGCTCTCACAGAGGGCACAAAGCCGACCTAGTAAAGACAAGGGCCCTGCCTGGGCACTAATACCCTTTTGGGGGATGGCCCTTCTCAGAGGACTCCAGGGAAGCCATGGATCTTTCTGGAGTATCTTAGGGAGACAGGGGACTTCTTGAAGAATGGGGAGTTCATAGAGTAGGAGGCGAGGTGAGAGGGGGTTGAATCACTGAGGACCCTGGCAGTGCTCCACCTGCCCATGGGGAAGGGACAGAGTTATATTGCACAAGGTTGTCTTAAGTGTCCAGAGCTGGTATCTGACTCCCTCTAGTCAGCCATAGCGATGAAGGGCAGCGGTGTGAGGGAGATCCCTGGCAAACACACCTGGCTATGGAATGTGCCTTCCACAAAGGCTCATTGTCTGAGGCAGGAGAAGCAAGGCTACTACTGTATGGTATTGTTGCCGTTGCTCTCCGCGCACATGTGTGCTCTCTCGCCTGCCCTCTCTAGGGCTGTGCTCTTAGCTAGAGGGTCACCTTGAGTAGGAGTGGAGGGTGCTTGAGTTCTTTGGCTTTCCTCCAGTGAGAGGAAAAAGCCTGCAGCCTGCTGTAGGTGGGGTGGGGGGCGTGGCTTTCCCAAGAGTTCTCCACTGACTTTGCCCAGGATGCAGAGTAAGTCCTCTGAGACTCCAGGGAGCATCCCCTTCCAAGTGGGCAGGAAGGGCTGAGTACATGTGGCTCAGCTAAGGAGTGCTAAGACTGACAGCTGAAATATTCCTGGAGGAGGAGCCACAGTACAGTGAAGCCAGGCTGCCCCGGCCCCTGCAGTGGCCCTCAGCTGTGCAGTTGACAGAACCACCAGCAGCAGTCTTCAGTCTTTTGTCTGATCCGGAATCTACCCTGCCATCTTCCAACCTCACTGAGTGGACACTTGGAACTGGCTGGAGACTGCTAGCACAAACTTAGAACCAGGCTAGGGAGAAGGTGACCTTGTACACAGGCCACTGGGGGCATCCTGCTCAGCGCAGATTAGCAATGCTGTAAAGACCCTCTGTGTACCAACCTGGGCCACTTCTGACCTGCTCTGTAGATGCTTTTGGTTTCTCTCAGAGTGGTGGGGCAGGGAAGGGAGCCCTAGGTATGTGCCCGTAGAATAACAATACAACATGCTGGACACAGATGAAAGCAGTGTTCTCTTATTGGTTTGTTCATTCATTCATTCATTCATTCATTCATTCATTCATTCATTCACTTATGATAAATGTTAAGTACTTCCTTAATATTAGAGGTACAAGACAGATAAGCTAGCTTCTTCAATCTGTGTAACCTAGTCACTAGATCTGTCAGCCAGTCTATGGGAAGATGGGCAAGAGTTCTTTGGGTAAGAGCTATGCCCACATTTAGGTTGAGGGTGAGGGTAAGGAGATCATTTGTAGGGAATATGGGTTACTAAAGCCATCAGGTCTCTATCCGGAGGTTGTAATCAAATGGGCTCAAAGACCAGGCACAGGTCCCACCAGTCTTATGAGGCTATTTTATCAGTTGGCATGAGAGGGCCTACTAAGGGTATGTGGGCTTCTAGTGGGCTTCCGAGGCAACTGAGCCTAACCCTGCTTCCTCACCCTGCTCCACTGCCTTTGAGCATGCTCCACTCTGCTGTAACCTCTACTTGCTCCATCTCCACAG
Seq C2 exon
ACTTTGATCCATGTTTTGCTGGAGCCTCCAACATCTGTGGCCCTGGGACCTGTGTGAGCCTCCCAAATGGATACAGATGTGTCTGCAGCCCTGGCTACCAGCTACACCCCAGCCAAGACTACTGTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020:ENSMUST00000002073:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.846 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PU(5.3=5.1)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=79.5),PF062476=Plasmod_Pvs28=PU(28.8=81.8),PF0764510=EGF_CA=PU(0.1=0.0)
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:
GGGATGCCACTGGAAGACCA
R:
CAGTAGTCTTGGCTGGGGTGT
Band lengths:
238-2052
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