HsaINT0097600 @ hg38
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr19:40597235-40599255:+
Coord C1 exon
chr19:40597235-40597380
Coord A exon
chr19:40597381-40599196
Coord C2 exon
chr19:40599197-40599255
Length
1816 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTCCACTCCACTATTTATAGCGT
3' ss Score
5.07
Exon sequences
Seq C1 exon
ATGCCGAGGCCTGGCACCAGCGGCCGCCGCCCCCTCCTGCTGGTGCTGTTGCTGCCGCTCTTCGCAGCCGCCACCTCCGCCGCCAGCCCCAGCCCCAGCCCCAGCCAGGTCGTCGAGGTCCCGGGGGTCCCCAGCCGCCCGGCCAG
Seq A exon
GTAAGCCCCCTGCTTCCTTGTGCCCCTTCCACCCAATAAGTCTGGTGGTCCAGGAGGACCACGGCTTTCGGATTCAGGGGAAACTCGAACCCACTGCTTCGATGTGGAGATGCAAAGAGGGCCCTTGGATTTATTAGGCGCCCTCAATTTGTAGGGGTTAGATTCGGGGAGTACTGAGATTTTTAGGGGAAAGAGTCCCCTTTATTGTGGTGGAGAAGGCTAAGTCTCCAGAGAATCCTGGGGTTAGTTCGGGGAAAGGTCTCTAGTTTATTGGGGCAGGGGGTGGGGGGCTGAGCTCTCCTAGAATGATAGAGACGTGTGGGGTCTTCGAGCTAGGATGGAGCGCCCCAAGTTTCTTGGGCGCGTAAGGAGGAAAGGTGTTGGGGGATTCTGGAGGGACTTTATGAGGCCGCTGAGTTGTCCTGGTTTTCTAGGATTTGGGGGCTCTGTGTTCATGAAAAGCGACCTTTGGGTTTTTCGAATTGGTCAGGAAGACATAGACTCTTGCGTTGATGGTGGAGGGGCTTGTGGGGAGTGGGGTCGGGTGGGGGAGTCCTCAGGCTTCAGAACGGTTGGGGATGCTCAAGTTTCCTAGAATTAGAGGACTCTGGGATTGAATGAGGCTCCAGTGATTTCACCGCGAGAGATCCAGGATTCCCTATAGATCTGGGGGCTATAGGCGCCCTTCCTGTCTGCGGGTGACGGGACTGAAGGAAGCCGTCTGCCCAGCACCCCCACCCACCCTCCCCGCCTGGCGGCCCAGCGCTCCGTTACAAAGGCCCCGGGCTCCTCTCCCGCCTGGGTCTCTGCGAATGCGTTTAGTAACCCGAGCCGCGGCGGGGGCGGGGCCGGGAAGGGGTTAACCTGGAGAAAAGGCGGGAGGGATGACGGCAAGATCGGGGATCCCCGAGGCTCCCCACCAGATGGCCTCATCCTCCACTCGGCCCCACCCACCTGAGAGGGGCCCACGCGCTGGACACCCCCCTCTCTGCACCCCCCCACTGCTCTCCTCTCGGGGTCTGGGCGCGCGCCCTCGTCTCTAGACCCCCTTAGCCTGGGGATAATGGACTTGTCTGGGGGGCCCCTTCATTGCGACGCACTTGAACCGGAGCTGGAAGCTCCGCCACTGAGACCCTCTGGGCTGGGAGATGTCTGCAAGAACGGCACCTTTCTCCTGGTCAGGCGGGAAACTGAGGCCCAAAGACCAAGAAACGCTGGCTTCTGGACACACATCGTGGAAGGGCAAGAACGGGCTAGAACTCAGGCTCTGGGATTCTCAGTCCTGGACTGTGACTCCCGTTATCCCCCTCCACCTCAGCACCCTGCTGGACCCACAGTCAGAGGGAAGAGCCTTCCCTCCCCAGCTGCCGAGGCCTGTGAAAATGGCGCCACCTGTCGGCCAGGCTCAGGATGGCGTCTGAGTCCCGGACCGGGATGTGCGGGAGGGCGGGGTTCTAGATTCCCAGACAGTGCGGGCTTAGAAATGCTCTTAGAAATCGAGTCTTTTGTTTTTGTTTTTGTTTTTTAATCACTTTTAAAAGGCTTTAAAATAACGTATTTTTTCAATAAAATCGTACGCCAAAATCTCTTCATAAGACAAAAGTACGGTTTCTGTGCCCTTCAGCCCGAAGTCTAAGCCAATTTGCCTCCCATTGTACAGATGGAGAAACTGAGGCGTGGGGAGAAGAACCTCGTTAGTCATATACCTGTTTCAAGCCCCCTCAGGATGCGTCTTGGTTTCCCCTCCCCGATTGCCCTCCTTTGCAGAGTTCTGGGGTGCTAGGGGCCTGAGTGACTTCCACTCCACTATTTATAG
Seq C2 exon
CGTTGCTGTTTGTCGCTGCTGCCCGGGCCAGACGTCTAGGAGGAGCCGCTGCATCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006:ENST00000308370:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=NA C2=0.178
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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