MmuINT0093776 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28120672-28122631:-
Coord C1 exon
chr7:28122447-28122631
Coord A exon
chr7:28120731-28122446
Coord C2 exon
chr7:28120672-28120730
Length
1716 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
TCCCACTCTCCTATTTACAGTGT
3' ss Score
8.15
Exon sequences
Seq C1 exon
ACTGGACACACTGCCCTCTTGGAGCCGGACTCTGCACCCGACACGATGCGCCGGCCTGGCCTCGGCGGCCCCTGCCCCCTCTTGCTGCTGCTGCTGCTCCCAGCCGCCACATCTGCTAGCGGCTCCAGTCCCAGCCCCAGCCCCAGCCCCATCGAGAAAGCGGTGGTCCCGAGCCACCAGGCCGG
Seq A exon
GTAAGCCCACTGCAGCGTCTTCTTCCTCGTGCTGTACCCAGTAAGTCTTGTGGTCTCGGAGGAGCAAGACCTTCAGATTTAGGAGGCTACAAAGCAACTGCTTTTGGTAGAAGGATGCTAAGGCCAAAGCCCTTGGATCTGCTGGGAGCCCCTACTTTGCAGTCGTTAGAATTCGAGATGCGCTGAGAAATTGAAGCGGAGGTCCCTCCAGAGGGGTAGGATGGGTAAGGCTCCAGCCAACTCCCGAGTTTATTGGGGAAAGAACCCCAGTTGATACCGGGTAAGACTTCGAGTTTTCTTAGAATAATAGCGATGGGTGGGGCCCTTGAACTAGCCTTCAGCTCCCCAAGTTTCCTGAGTGTTTTTTTTTTTTTAAAGGTGCTGGAAGGTCGTGGTGAGATCTTAAAGAAAAGTTGCCGTGTTCTGGGTTTCTAGGGGGGCTGGATTAATTGGAAAAGACTTCTAGGTTCTTCTAATAGATTAGGAAGACGCATATAGGCTCCTGGCAAGGGGACTGGAGGAAACCTGTGTAGGGGATCCTTGGATTTTCTGACGCTTCTAGTTTTCTGAGATCAGAGCTCCTCCGGATTGAATGAATTACTAATGACTTGGTGGTAAGGTCCAGGGTAGTTTATAAATTTCAGTGTTTATAGGACACCATCGCGTCTGCGGGTGACAGGATCGGAGGAGATGGTCTGCTTAGCATCCCAGTCCTGCTCCTGGCAGCTCTGCGCACCGTTACAAAGGCCGTGGGCTCCGCTCCCGCTCCCGCCTGGGTCTCTGGGAATGCGTTTAGTAACCCGAGCCGCGCCGGGGGCGGGACTGGGAAGGGGTTAACCTGGAGGAAAAGCGGGAGGGATGACGACAGGATTCGAGGGTCTCAGAGGCTCCCCCAGGGCAGCCTGCGCTCCCTCTAAGCCTCACTCATCTAGAATGGATCCGGGCATTGGATTCCCTTTCTCAGTATCTTCCAAAGTTTTTCTCTCTGGGTCTGAACGCGCACCATCATCCCTCACCCCCCCCTCTAACTTGGGGATAATGGACTTGTCTGGGGGGCCCCTGGGTGACGACGCTCTGGCAGTACCGCTGAAGGGTCGCGGCTGAGACCCAGTGGCACTGAGACATATCCGGAAAAGACCCTTTCCTCTCGGACATTGAAGTTCAAGGACCAGGAGACGCTGGTCCCAGGACGTACATCCTAGAAAGGCGGGAACTGGATAAAATTCAGGCCTCGGGATTCCCAATTCTGGACTTCGGTATCCCTACCACCTCAGCACTGTGCTGGACCCGTAGTCTAAGGCGACACCGCAGTGCACAGCCGCCGAGGTCTGTGCATGTAGCGCCACCTACTGTTCGATGTTAGGATGGCGTCTGAGCCTCCACTCTCCTCGAATTAGTGGGCGGAGTTCTAGATCCCAGACAGTCCAGGCTTGTAGATTCGCTTAGAACTCTCCTTTGAAAGTCTCTTGAAATAATTTTAAGCCTGGCGTGATGGCTTATGTATGTAACTTTAGCTTTAGTGGAGAATGAAGCAGGAGGATTGTCGTGAGTTTGAGGGCTACCTGGGCTACACAGTACATTCTAGACCTTGTCTCAAAATAATGATAGTAATGAGTGCTTGGAATTCCCTTGAATCTTGTCTTGGTTTCTCCTCTGTCCTCCACCCCTGCTCTCCTTTGTTCTGAGGCCTGAACAGTCCCACTCTCCTATTTACAG
Seq C2 exon
TGTTGCTGCCTGTCACTGCTGCCTAGACCAGACACCTAAGAGTAGCCGCTGCACCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_175641:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGACACACTGCCCTCTT
R:
TGCAGCGGCTACTCTTAGGT
Band lengths:
238-1954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: