MmuINT0093713 @ mm10
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:84783212-84784903:-
Coord C1 exon
chr12:84784754-84784903
Coord A exon
chr12:84784396-84784753
Coord C2 exon
chr12:84783212-84784395
Length
358 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTCTTCTTTGCTTCCATAGATG
3' ss Score
11.4
Exon sequences
Seq C1 exon
AACCCCTGGCCTCCTTCGAAGGCCTTCAGGCTGAGGAATGTGGCATCCTGAATGGCTGTGAGAATGGCCGCTGCGTGCGTGTGCGGGAGGGCTACACTTGCGACTGCTTTGAGGGCTTCCAGCTGGATGCGGCCCACATGGCCTGTGTGG
Seq A exon
GTGAGTTTGGAGTGAGTTGGAGAACCACGCCTACCACAGGACTCCCGGCTAGGGCAGCCGGGAAACACGCTGCTGCCCCCTAGTGGGCGTGTGTCAAGCTAGTGAAAGTGGAAGCCCCAAAGACAGGTTTAATGGTCCATCCTCCACAGAAGAGAAGCAAAGACACGAAGGCATAGTCTTGGGCATGCTAAGATGACTGCTTCTTGGGTTCTGTCCCTTAGTTGACTTGTTTGGGGCGGCCTGATGAGGCAGGGGGTCTGAAGAGGGGGCCTTTGGGTGTCATATCCAGGGAAGGGGGAAGGGGCTGGTGGCTAGAGGGACCCAGAGACCCCTGCAGCTTTCTTCTTTGCTTCCATAG
Seq C2 exon
ATGTGAACGAGTGTGAAGACTTGAACGGGCCTGCAGCACTCTGTGCACACGGTCACTGTGAGAACACAGAGGGTTCCTATCGCTGCCACTGTTCGCCAGGTTACGTGGCAGAGCCAGGCCCCCCACACTGTGCGGCCAAGGAGTAGAAGTGAGGGCTTGTGTGGGCAGCTATCTGGAAAATGGCTTCAGCCATAGGCCGTGGACTTAAGATTGCTTCCCTAGCTGGGAAGACATCGCGCTGGGAAGATGACGTGATGACATCAGGCCCGGGCTCTGGACCCAGTTCTGCCAGCCTTGCCAAATTTTTATTTCTTCCAGCTTAACTCTGGGTGTGAGCTTCCATCACTGCCTCTATGCCATTGCTTGGCTCAGACACCACAAATATCTTAATGCTTCAGCCACTGGCCATGAGACACGCCCACCAGTCTGTCCCCGGGACCACACTATAGGGCACTCATCAGGCTGTGCTCTTAGGCTGTGCAAACATTGCAGGTACCCCTTTCCAGTTGCGAGCCACACATCATCCTAGTTGTTCTGTAATGGGGACAGTGGCTGCATCCGCCCAGGGATGGTCTCTTCACAGTCTGTGGAGCAAGAGAGGGTTTGGGGAGTAGCTCCTGTCACCTCTCAGAACCAACACCACCACTCGGCCAGGCTGGCATGAGCTCTTTTTGCCACATCTCCATCTCTTAGACAGTTCTGCAGCCCCTCATCTCAGAGGATGAAGACTAATACTAACTCGCTGAGTGGTAAGAAATACAAAGGACGAGGAACAGTGAGCCTGAGAAAGTACGGCAAGAGAGTGATGTGGAAAACATGGCGAGCTGATACGAAAGGAGGAGCCAAGAGTTAAAGAAATCTAAAAACACTGAGTTGCTTTGGGCAAATAAGTACTTGAAGCCCCTTAGAGGCTCTGTGTGCCTGCAGTGAGGCTTGTCATAAGCTCTGGCGCCCATATGCAAAGGCCTTTCTTAGGCACATCTATCCCTATGGGGAAACCCAAATAGATGGGCTAACAATATAAAGGTCTCCTTTTCAGCTGGTCTTGGCAGAGGAGGCCAGGTTTTCAAAGTTGTTTATCTCCTCCACTCAGAAGCACTTGCCCTTGTTCCCTCTAAGAAATGCACTTCCATACAAGCTAGCTGGGGGTTCAGGAGCATGGGGGAATAAAATGTTCATCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020:ENSMUST00000002073:35
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),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=89.8)
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:
CTTCAGGCTGAGGAATGTGGC
R:
AGCAATCTTAAGTCCACGGCC
Band lengths:
342-700
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