HsaINT0097624 @ hg38
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr19:40627705-40629623:+
Coord C1 exon
chr19:40627705-40627857
Coord A exon
chr19:40627858-40629395
Coord C2 exon
chr19:40629396-40629623
Length
1538 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TCGTTGTCTCCCCTCCGCAGACA
3' ss Score
11.79
Exon sequences
Seq C1 exon
GTTCCCTGGCTGAGCCCTACGAGGAGCTGGAGGCGGAGGAGTGCGGGATCCTGGACGGCTGCACCAACGGCCGCTGCGTGCGCGTCCCCGAAGGCTTCACCTGCCGTTGCTTCGACGGCTACCGCCTGGACATGACCCGCATGGCCTGCGTTG
Seq A exon
GTGAGGGCGGGCCCGGGGCCAGCATGCGCAGGGAGAGGCGAGGCTTGTCCAGGGAGGGTGGAAGCCCTGACTAGGGGGTGCTGGTCAGGGACGGGAAAGGACCTCACTACAGGGGACGGGCCAGCGCAAAAGGGAGGAGTAATTCTTCCACCTGGGTGGGGCTTGACTGAAGAAGGCGGAGTCAGGGTGCCAGCAGGGCAGGGCTTAACCACGGGGCTGGAGCCGGGCCTTGAAGCAGGATAGAGGAATAGAATAGTGCTGGTGTGACTTGCAGTGCTACCTTGGGCAGTCTGCAGGACCTCTTTGGAGAGCCTCAGTCTTCCCACCTGTAAAATGGGAATATTAATCAAGTCTGCCTAATTTGGATGGCAGTAAAGCCAAGTGATTAAAATCAAGAACATAGCCGGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCATTAGGTCAGGAGTTTGAGACCAGCCTGGCCAATATGGTGAAACCCCGTCTCTAAAAATACAAAATTAGCCGGGTGTGGTGGTGCATGCGTGTAATCCCAGCTACTCGGGAGGAACCCAGGAGGCAGAGGTTGTGGTGAGCCAAGATCGCGCCATTGCACTCCAGCCTGGGCAATAAGAGCAAAACTCCGTCTCAAAAAACAAACAAAACTCGAGGAGGTCACATAGACCTCAGACTCAGTCCAGCAACTTGCTGTGTGACGCTGGACAGGTCACTGTCCCTTACCTAATTTTTCTGATATGAAAAATGGCTACAGTCAAAGATCCCATTTCATAGAATTGCGAATATTATTAACACTGATTTACAATAACATTGAGAGTCATGTGCAAATGGAGGCACATGCGTAAAACGAATTACAGTACCTACCTAATAGGGGTATTAGAAGGACAAAGTTAATACTTGTAATGTGCTTAAAACAATGCATGAACATTTATTGTTGTTGACACCATCATCAGTATTTTTTTCTTCTTTTTTTTTTCTTTTCTTGGCGACAGAGACTCACTCTGTCGCCCAGGCTGGAGTGCAGTGGCCTGATCTCGGCTCACAGCAACCTCCTCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGATTACAGGCGCCCGCCACCATGCCTGGCTAATTTTTGTATTCTTAGTAGAGACGGGGTCTCACCATGTTGGCCAGGTTCGTCTCGAACTCCGGCCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGAGATTACAGGCATGAGCCACCGCGCCCGGCCATTATTATTTTCTTAACAAAATCCTAGTGCGGTATGGGCCACCATATCCATCTTACAGAACACGAAACTGAAGCACAGTGAGGTTAAGCCACCTGGCCGGGCTCACACAGTTAGCAGATGGCAGAGGCCAGATTGGACTCCAAACTGCTCAGCATCTGTGCTCCTCTGTTCCAAGAACTTAAGGGGCCAAGGAGGCGAGCTTCTGGGGCCCCAGCCTTCAGCAGCGATCGTTGTCTCCCCTCCGCAG
Seq C2 exon
ACATCAACGAGTGTGATGAGGCCGAGGCTGCCTCCCCGCTGTGCGTCAACGCGCGTTGCCTCAACACGGATGGCTCCTTCCGCTGCATCTGCCGCCCGGGATTCGCACCCACGCACCAGCCGCACCACTGTGCGCCCGCACGGCCCCGGGCCTGAGCCCTGGCACCCGCTGGCCGCCCACCCGCGCCCGCCACTCGGGGCCCCTGCCGCGCATCCTGCAGCCCGCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006:ENST00000308370:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=67.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=FE(48.6=100),PF0764510=EGF_CA=WD(100=100.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGAGCCCTACGAGGAG
R:
CACAGTGGTGCGGCTGGT
Band lengths:
278-1816
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development