MmuINT0093713 @ mm9
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:86124162-86125853:-
Coord C1 exon
chr12:86125704-86125853
Coord A exon
chr12:86125346-86125703
Coord C2 exon
chr12:86124162-86125345
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-Ltbp2:NM_013589:34
Average complexity
IR-S
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(42.0=66.7),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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: