MmuINT0093678 @ mm10
Intron Retention
Gene
ENSMUSG00000001870 | Ltbp1
Description
latent transforming growth factor beta binding protein 1 [Source:MGI Symbol;Acc:MGI:109151]
Coordinates
chr17:75389430-75391767:+
Coord C1 exon
chr17:75389430-75389579
Coord A exon
chr17:75389580-75390371
Coord C2 exon
chr17:75390372-75391767
Length
792 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
CGTGGTTTGGTTTATTGCAGATG
3' ss Score
9.48
Exon sequences
Seq C1 exon
GCTTTCTAAATAGCTTTGAGGAGCTACAGGCTGAGGAGTGTGGCATCCTCAATGGTTGTGAAAACGGCCGCTGTGTGAGAGTCCAGGAAGGATACACTTGCGATTGCTTTGATGGATATCACCTGGATATGGCCAAGATGACCTGTGTCG
Seq A exon
GTAAGAATGAGAGTGTCCGTTAAGAGACACTTTCCCTGGTGTCCCCTGTGACTGGCTCTGGTCAGCTGAGTATGTGTCAGATACATGGGTGGGCTTGTGGTTTGGAAAGATGAAAAAAGGTTCTAGAAATATGCATGAAGTGTAATAATACTTCATGTCACATGACTATACACAAAAACAGTTAAGGTAGTCAATGGTATAGTCTGTATTTCTTTTATGACAGCTAAAACTCATAGTTATCACCCCATATAAGAAGCCTAAGTGTCATATTTTTCTCATGGTCAGAGACTGAATCCCAGGACTTTGTGCCTGCTACTCAAGAACTGTACTGTGAATGATGTTCTACCCCCAGCCCCACCCCTAAAAGGCCAGAATGTCTCAAGTAGTTATTTTGACTTTTAAATTTAAATTTTGACAGTTCAGTAATGACTCCCCTGAGTATGTGAGATAAATATAAAAGACTGAAGGCAACTAGGAAATAAACAACTTCCCTAGCAGTTATTTTGGATAAAAATCTTTAAAAAGAAAAAATCACCATTCACACTGTAGCTTGGATATATTAAATATCAAGCCGACAAATGTTGACATTGTATTAAATAACAGGGCAATTCCAGACTCTCCCTGATCACTTATTTTACTATGTATAAAGGCTTATCTTGCATATTGAGAGAGGTAAAAATGAGGAAACTGTCTGGTTTATGTGGCCAAGAACTGTGGACAGCACCCAGGCTGGCCGCTGCGTGTCACTGGTGAGTAACGTAGCATTAAACACCGTGGTTTGGTTTATTGCAG
Seq C2 exon
ATGTAAATGAATGCAGCGAGCTGAATAATCGGATGTCTCTCTGCAAGAACGCCAAGTGCATTAACACAGAAGGCTCCTACAAATGCTTGTGTCTGCCAGGCTACATACCATCCGACAAGCCCAACTACTGTACACCCCTGAACAGCGCTTTGAATTTAGACAAAGAAAGTGACCTGGAGTGAAGGAGAAGAAGCTGCGTAACCTATGCCCATATACTCTGCACTGTGTAAAGGGAAAGGGAGAGATGTATACTTGAGACACTGCACCTAACCCAGAATGTGGCAAAGACAGAGACAACTTGGAGTTGAGTGAACCCCCAAAGACAGTGAGCGGATGGAGCTGGAACCTGACAGGTGCAACAGACCAAATGGACATTTCTTCAAAAACCCAGTATATATAGTCTGTTCATATGTAAAATTCAGTGGAAAAGAGGCAGGACATGGCTGTCATTTTAAACAGAGGTTGTATTATTATCTTGTTTTGATTTTTTTTTTTACTATTGCTTAAATTTGGCTTTTAAATATTAGTGGAAATGTTTTATGTGATCTTTCTTTTTGCTGTGCAGATCCTCAGCTGCCGTTTTTTTTTTCCTCCAATGATAATCTCAAGTGCAAACATCTTTGATAAAATATTGTTAAACTGTATTATAAGTAATATGACACAGGGTTGTGCTGTCCCTTGGTCTGGAGACTTTTAAAAAAACAAGTTGTCTGTCCTGTGGAGCAGGCAGTAATTGTTAAACTTTTGGAGGGGATGGAGAAACATCTTTATTTCAATGTATTACCAGATTGCCTGTCAATTGGATCCCTTACCTGGATGGAAGTGGAAGAGCTTCATAGAGTTTATTAATATTGTGATGTGTAAAGTCAACCGAGAAAAAATTAAAAACCTGAACATCCCCCCCCAAACATTTACCATTGTATGTTATAAGAAAATAAACTCACCATTTTTGTAGAAAAAAAAAATTTGAGTGTGGAAGAAGAAGTTGTCCCCTTCCTCATAACAGCTCCCCCATCTCTGATCTTTTAACCACTAGTCCTCCATCACGCTAGGCTTCTGTAAGTTAGGACTGGTTAGCTACTGTTACAGGTTGCTAATTTCCATCTTAGTTCCAGGCTGAAGTGCTGCATCCCCGTGCTTTAGAATGCGTGGATTCTCTTTGGAGACAAGATCTCTAAGGAGGAAATGAAAGTTACAGGAGACCAGTGGAGTAAACTGTAACCCAAGACTATGGGTGTCCTTAGATGACAGGGAAGTAAGGACTTGTGCAGAGAAAAGGTCATTTGAAGAGGGCTGGAAGGCGACCATCTTGCAAAAGAGTGAGGCCTCAGAGGGAAGCCAACTCTGCCACAGAGTTTGACAGAGTCCAGAATTATGAGAAAATAAACTTCTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001870:ENSMUST00000001927:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=58.8),PF062476=Plasmod_Pvs28=PU(40.0=66.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=PD(58.8=82.0),PF0764510=EGF_CA=WD(100=72.1)
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:
GCTGTGTGAGAGTCCAGGAAG
R:
TGGGTTAGGTGCAGTGTCTCA
Band lengths:
355-1147
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