HsaINT0090834 @ hg19
Intron Retention
Gene
ENSG00000090661 | LASS4
Description
ceramide synthase 4 [Source:HGNC Symbol;Acc:23747]
Coordinates
chr19:8322763-8326728:+
Coord C1 exon
chr19:8322763-8322869
Coord A exon
chr19:8322870-8326571
Coord C2 exon
chr19:8326572-8326728
Length
3702 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TCCTCTCCCCCTGGCTGTAGGAT
3' ss Score
9.88
Exon sequences
Seq C1 exon
GCCTGTAAGATGGTCAACTACATGCAGTATCAGCAAGTGTGCGACGCTCTCTTCCTCATCTTCTCCTTTGTCTTCTTCTACACCCGACTGGTCCTCTTTCCCACCCA
Seq A exon
GTGAGTCAGCCCTCCCATGGGGGTCAGGGAGGTGGGAGGGCGTGTCTGAGATTCCAGGACTGCCTCACCATTGGTACCCTGCCCCAAGGAGCTGGGGATCTTGGCTGGGAGAGTTCCAGGAGGAGGCAGGGAAGGGTGTGCCAGGCACAGGGCACGGCATATGCAAAGGCGCAGAGGTGAGACAGAGAATTATTATTACTCAGCGTGCCTGGACCATGCAGTGGGAGGAAGGGTCAGGGCTGCCAGCGCACCAAAGTCTGCCCAGTAAATATTTGTGGGGGCCTCTTGAGTGTGCTGGTAACACAGCAGAGGCCACAGTTCAAAGATCCCGGCCCTTGTGAGCAGACATTGCATGGGTGGGAGCAGATGGTAAGTGAGGCAGCCACGTGAACTGCACAGCATGCGAAGGAGAGATTTACTAACAAGAAAATAAATTTGACGGGCCGGGCGTGGTAGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGCGGGTCACTTGAGGTCAGGAGTTCCAGACCAGCCTGGCCAACATAGTGAAACCCCATCTCTACTAAAAATACAAAAGTTAGGCTGGCCACAGTGGCTCACCCCTGTAATCCCAACACTTTGTGAGGCTGAGGCAGGAAGATCACGAGGTCAGGAGTTTGACACCAGCCTGGCCAACATGGTGAAACCTTGTCTCTATTAAAAATTAAAAATTAGCCGGACGTGATGGTGCATACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGGATCACTTAAACCCAGAAGGCAGAGGCTACAGCGAATCAAGATTGTACCACTGCACTCCAGCCTGGGTGACAGAGGGAGACTTTGTCTTAAATCAAATTGGCCAGGTGTGATGGCTCACGCCTGTCATCCCAGCACTTTGGGAGGCCAAGGTGGCTGGATCACCTGAGGTCAGGAGATCGAGACCACTTTGGCCAACACAGAGAAACCCTGTCTCTACTGAAAACACAATAATTAGCTGGGCATGGTGGCACACGCCCGTAATCCCAGCTACTCGGGAGGCTAAGGCAGGAGAATCACTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCTGAGATCACACCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCTGTCTCTAAATAAAAAAAAGTCAGGAAGGGAGCAGGAAGTATGGGAGAGGTGGGTAGTTGGAATTAGAATGGCAGGTAATGCCTCGCTGGCAGCGTTTGTACCGAGAGATGGGAGGGAGGTGAGGGACAGAACCACGTTGATCAGAGGGGAAGTGTGTTCCAGGCAGAGAATAGCATGTGCAAAGGGCCTGAGGCAAGACCATGCCCGGCATGTTAGAGGAAGAGCAAGGAGGCCTGTGTGGCTGGAGCAGAGTGGGTGAGGGGGAGGGTAGGCAGGAGATGGAGTAGGCCGTGCAGGTCCTTGAGGGCTGTGGGCAGGACTTTGGCTTTGACCCCGGGGGAGATGGGAGCCATGGAGGTTATAAGCAGAGGGATTCAATCTGACCTAGGTGTTCTGGGTGCCCTTTGGCAGCTGCAGGGGAAACATCATGGGAAGTGTGGGCAGGAGTGAGGGGACCCAGGGTAGGCGAGAGAAGTGGGCAGACTTAAGGGGATGCCTCTGGGATCAGGAGGTGGGAACAAGCACAGAAGGAACTGCTCGAGGCAGCAGGAGCTCAGCCCTGCTGGGTTTGAGGGGTCTGTGGCCTCAGAGGAGACATGGAGAAGGCAGTGGGCATGCCAGTCTGGGCTTCTGGGGAAAGAGGTAATGTAGGAGTTGTCAGTCCATGGCTGGTATTTGCAGCCAGCAGCCTGGATGGCATCACCTAGGGACCAGGTATGGACAGAGAGTCTCAGTCCTCGGGCTTCCTGATGTTTGCAGGTCGAGAGAGGAAGAACAGGGCCCATGGAGCATGAGAGTCAGATTACATCCCTCCTCTGGCTGCCATCCTCCATGGCTCCCACCTGTCTTGGTTTCAAGGCCTGAGGAGATTAGGCAGAAGTGGCTGTGAGATGGGGAGATGGTGGGGTGCGGGGAGCCAGAGAGGGAAGGGGCCCAGGGAGGAGGGAGGGCTGCTGGCAACCTGTTGTGCCAGCTGGTGGGGCTGCAGGGCTGAGCACTGTGGAGTGAGGAAGGCGAGGTCGCTGGTCACCCTACAGCTGATTGGGGGGTAGGAGAAACACAGCAGCTACAGCCAGTACTTTTTGAGATGGAGTCTTGCTCTGTCACCTAGACTGGAGTGCAATGGCGTGATCTCAGCCCACCACAACCTCCGCCTCCCGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGAATTATAGGCACACACCACCACACCTGGCTAATTTTTGTATTTTTTTTTTTTTTTTTAGTAGAGATGGGGGTTTCACCATGTTGGCCAGGCTGGACTCGAACTTCTGACCTCGTGATCCACCCGCCTCCACCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCCAGCCCAGCCAGTACTTTCAAGGAGTTCCAAGGAAAAAAAAAAGCCTACAGGGAAAAGAAATAAGTTGGTGCCCAGAGGGGCAGAGTAAAGAGTGAGCTTTTTGTTTTTTTCTTTCTTGTGTGAAATAACAGTGGGATTGGAGTTGATGATAAAGAACCAGCAGGAAGGCTGGGTGCGGCGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGAACAGATCACTTGAGGTCAGGAGTTCCAGACCAGCCTGGCCAACATGGCAAAAACCACCTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGCAGGGGCCTATAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTGGAACCTGGGAAGCAGAGGTTGCAGTGAGCCGAGATCACGCCATTGCACTCCAGCCTGGGTGACAGAGCAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACAAGAACCACAGCTGAGTTTGAGAAGAGGATGTGGTGGGAGCTGGGCTCCAGGACAGTGTCCCAGGCAACAAGCAAGGAGGAGTTCGAGGGAAGGAGCAGTGCTGGGGAACATTCTTTCCAACTGGCTTGGGTTGCACAGTGAAAATGAAGCCCCGCCCCTCCCAGCCTCCGTGGGAGACAAAGCCCCACCTCTGTCCGGCTACCCGGGAGATGAGGCCCCACCCCTTTTTTACTCCTTGGGAGATGAGGCCCCGCCCCTCTTAAACTCTGGGAGATGGAGCCCTGCTCCCTGTGTCTTCCTGGGAGATGAGGCCCCACCGCCTGCCTTCCTGACATGAAGCCCCTCCCCTATGAGGTGAGTAGGCAGTCGCCTGCTGATGAAGGGGAGGTGATGGGGGTCTGAGGAGTAGAGAGAAGCTGCCAGAGTGCCACCCAGGAAAGCAGCTGAGTTCATAAGTACCCGCTTGGGTGGGGTTCATAGTCATGAATGGCCAGTCAGGGAGCTCGTGTGTGTGTTCTGCTCATTTAGTACAAGCGAGAGGGGGCCTCGCGTGCCCAGCTCAAGAGTGTTAGGTATCATGGGGTGGGGGGCACTAGGGAGCCATAGGTGGTTATGGAGCAGGGAAGGCCATGCCAGTTAGAAATTCTTAGGACTGGGGGCTACAGCGGCTGGTCAAACCCCAGCCTCCTCCTCTCCCCCTGGCTGTAG
Seq C2 exon
GATCCTCTACACCACATACTACGAGTCCATCAGCAACAGGGGCCCCTTCTTCGGCTACTACTTCTTCAACGGGCTTCTGATGTTGCTGCAGCTGCTGCACGTGTTCTGGTCTTGCCTCATTCTGCGCATGCTCTATAGCTTCATGAAGAAGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090661-LASS4:NM_024552:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)