MmuINT0093705 @ mm10
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:84787904-84789227:-
Coord C1 exon
chr12:84789084-84789227
Coord A exon
chr12:84788096-84789083
Coord C2 exon
chr12:84787904-84788095
Length
988 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GGGGCTTCTGTCACACACAGCTC
3' ss Score
5.23
Exon sequences
Seq C1 exon
ATGTGAACGAGTGTGAGCTCATGATGGCAGTGTGTGGGGATGCGCTCTGTGAGAACGTGGAAGGCTCCTTCCTGTGCCTTTGCGCCAGTGACCTTGAGGAGTACGACGCAGAAGAAGGACACTGCCGTCCTCGGGTGGCTGGAG
Seq A exon
GTGAGACCTGGGAGGCCCCTTCCCTTCCTGCCACTTTCCATAAGGACTCCGGCTTATAAAAGCCATCCCAGCTCCAGCTACTTAGTAGAGTTCAGTGGGCCAGTGTTGGGGGTGTGGATTACTGTTGGATGATAGAGAGGACAGGAGTCTGAGGGCCACATTTGCCAGCACGTGCCAGACAACATTCCCACTGAATGGCTAGGATGACCAAGGGAAACTCAGGGTGCTCTGTCACCTAGAATAGCCCTCCAGGGGACCTCTGATTGAGTTTGTTACAGAGACCCTGAGTCCACGCAATCCTTGAATAGGTCTTTTAGATTAAGGAGGCCTTGAAGTTGAACTAAGCTGGACCCTACCCTTCTCATTGCTACTCTACCCCAGGCTAGACCATAACTCAGCTGGCTTCAGTGACTTGGAAAAAAAAGTAAGGGGAACTTTATAAGGAAAAATGGAGGGGAGAATGGTTTGGGGTCCCTGAGAAGCAGAAGGGACCAGAAGAATGTTCATATGGTATGCCCAGAGATGGGGATTGTCCATGGGGGTTGTTGGCAAGTAGTGCATTAGAAACATCAGGGCCTTGGGCATCAGAGGCACTGGAAACCGAGTCCCATTTCATCCCTTAATAACTCCTTAAATGGCCGGGCAGTGGTGGCGCACGCCTTTAATCCAAGCACTTGGGAGGCAGAGGCAGGAGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACTGAGAAACCCTGTCTCGAAAACAAACAAACAAACAAACTCCTTAAATGTAACTTCTGAGATGCAATTTCTTTGTGGACAACATGAGCCACCCTAAAGATGCTAAGGGTACCACGTGAGATACTGTACACCATAAGGTCTCTAGAGACACCAAGTTTAAAAGGTCAACTTGAGGGCAGGGATGCCTCAAAGGGTCATGAACAGACTGTCATAGGGGGCTTCTGTCACACACAG
Seq C2 exon
CTCAGAGAATCCCAGAGGTCCGGACAGAGGACCAGGCTCCAAGCCTTATCCGCATGGAATGCTACTCTGAACACAATGGTGGTCCTCCCTGCTCTCAAATCCTGGGCCAGAACTCCACACAGGCCGAGTGCTGCTGCACTCAGGGTGCCAGATGGGGAAAGGCCTGTGCGCCCTGCCCATCTGAGGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020:ENSMUST00000002073:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.049
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=85.7)
A:
NA
C2:
PF0068312=TB=PU(85.4=53.8)
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:
TGTGAACGAGTGTGAGCTCATG
R:
TGAGTCCTCAGATGGGCAGG
Band lengths:
334-1322
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