HsaINT0090852 @ hg19
Intron Retention
Gene
ENSG00000139624 | LASS5
Description
ceramide synthase 5 [Source:HGNC Symbol;Acc:23749]
Coordinates
chr12:50523581-50528485:-
Coord C1 exon
chr12:50528329-50528485
Coord A exon
chr12:50524478-50528328
Coord C2 exon
chr12:50523581-50524477
Length
3851 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTTGGTCTCATCCCACCCAGGTA
3' ss Score
7.37
Exon sequences
Seq C1 exon
GATTCTGAACACGACCCTCTTTGAGAGTTGGGAGATAATCGGGCCTTATGCTTCATGGTGGCTCCTCAATGGCCTGCTGCTGACCCTACAGCTTCTGCATGTCATCTGGTCCTACCTAATTGCACGGATTGCTTTGAAAGCCTTGATCAGGGGAAAG
Seq A exon
GTGAGGATGAAAGATGGCTTCTTTCTTTTGGGTATGGAAGATAGGGATTACTCAACAGACGTTCTCTCTCCATCAAACCTGGTGAGCCCCATCTACTCAAGCAGGCCAAGCAAAAAGCCTAGGGCTCCAAAGTCTTCGCCTCTTCGGTAAGTGTTTTGCCTTTTTTATTTTAGAGACAAGGTCTTGCTCTGTCACCCAGGCTGGAGTTCAGTGGCATGATCATAGCTTACTGCAGCCTCACACCTGGGCTTGGATTCTCCCACTGCAGCCTCCCAAGTAGCTGGGACTATAGGTGTGCACCACCACGCCTGGCTAATTTTCTTATTTTTTGTAGATAGGGTGTCACTATGTTACCCAGGCCAATGTCCAACTACTGGCCTCAAGCAGTCCTCCCACCACGGCTTCCCAAAGCGATGGAATTACAGGTGTGAGCCACCACACCAAGCCTGTTTTACCTTTTTTTTTTTTTTTTTTCAGATGGAATCTCGCTCTGTTGCCCAGGCTGGAGTGCAATGTCACGATCTTGGCTCACCACAACCTCCACCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCTAGTAGCTGGGATTACAGGCGCATGCCACCAGGCCTGGCTAATTTTTGTATTCTTAGTAGAAACGGGGTTTCACTATGTTGGCCAGGCTGGTCTCTAACTCCCGACCTTGTGATCTGCCCACCTTGGCCTCCCGAAGTGCTGGGATTACAGGCGTGAGCCACCGCACCTGGCCTGCCTGTTTTACCTTTTAAGATGTGACTTAGACGCAAGAGGAAAGTTCTACCTTCTTCCTGTCCCTTAGGAATGGCTTTTGTTAAAGGATGATAGGGTTAAGAGTTTTTTAAGAGATGGCCTCAACCATTTCCTACCCCTTACCTACCTGCTTCAGTGGATTTCATATTTTTCTTTTTGACATGGGGCCCTTTTCAAAGGAAATCATATGCAGAACCATATAAACTGTATAAAAGCAGATTGTTAAGTTGCCTAGAAGTGGTGTGTGGTAGTTCACAAGCCACCACAAGGTGACCATGCTGTGATATTCAAGATATGGTTTATATAAGGAACTAAATACCCACCTCACCCCACTAGTGTATGAGGCAAGTGTCCTAAGTGAATGGGTATGTAGTGTTTCAAATACCCATCTTATGCCAAGAGCGAAAGAAAGGTGCCACTTAATGATAAACTCATAATTGAACTTTGCAAGTTTTGAAGCAGTCAGACTGTAGTCAAAGGGCTAGGGATTTCAGCCTAAAGGAATACAGAATCCCAAGTGGGAGGGGCTCTGCTTGAGCAGGTACTGATACTAGGACCAAGTGATGGAATGTGGCCTAGATATTGATGATCTCCTGCATCATTATTCCTTATAGCTGCCATTGGCTCAGAACTTGCTCAGTGTGCCTGTGCATCTTGCTGTAGCTACTGGACATCTCTGTTCTCTCCTGCTTTTCTTTCCTGACTAGGTGACCTGTCCAGGAAGGATTAGACCCTGTACTCTCCACTCTTTCCTCACCTCCTTCCTTTTTTCTATGCCTGGCGGGAGCTGGACAGTTTCATCTCTTGCATGTAAGTGTATCTGTGCTTCTAGTATTCAGTGAGGCATGTCCATCTGAATGTGGTTCTCTTTCCTCCTGCTCTCCTTTCTGTTCCCTTGTGTTTGTCTCAGAGCATGCCCTCTCTCCTGACTTTTCGGGGCCATTATTGACTAGAGCTGCAGTTGCCAGATTTTTTCCTAAACTGAGGCAAGAATTGAGTCTACTTTTTTTTGTTTTTCTTGAGTCTCTGTTTACCTCAAATCTAGAGACACTCTGCCCTCTAGTGGAAATTTCCTAAAGGTCAGGTAATCAGTTAGTCATCTAAGTTCAGAGGCCAACAGCTATAATCAACTGTAGAAGACCCATCCAACACAAATTCAAGGAGCTGATCCAAAGCAAATGCCCACCTCCTTGGCAACAGTTGTTACAGCTGTGTTCCTTTTCACTTCCTTCTCTCCTTTACTTAAACCACATTTATTATCCTTCAGTTCTGGAGGTCAGAAGTCCGACACAGGTCTCACTGGATTTCTGTTCTTTACTATTAGAGTCCAGGGTAATTTTTTTTTTTTAATTTTTATTTATTTATTTTTGAGACAGAGTTTAGCTCTTGTTGCCCAGGCTGGAGTGCAATGGCGTGATCTTGGCTCACTGCAACCTCTGCCTGCCCAGTTCAAGCGAGTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCATACGCCACCACGCCTGGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCTTCATGTTGGTCTGGCTGGTCTCGAACTCCCGACCTCAGGTGATGCGCCCACTTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCATGCTCGGCCCTTTTTTTTTTTAGAGACAAGGTTTTGCTCCATTGCCCAGGCTGGAGTACAGTGGCGCAATCATGGCTCACTGCAGCCTCGACCTCCTGGGCTCAAGAGATGCTCCTGCCTCAGCCTCCCAAGTAGCTAGGACTACAGGTGCATGTCACCATGCCCAACTGATTTTGTCATTTTTTATTTTTTGTAGAGACAGGGCTCTCTCCATGTTGCCCAGGCTGGTCTCAAACTCTTGGGCTCAAGCTGTCCTCCTCCCTCAGCCTCCCAAAGTGCTAGGATTATAGGTGTAAGCCACTGTGCCTGGCTCATGGTGGAGAAATTGAAATACTTTGCTTGATATGCAGGATAGTTTAGATTAGGAAATGCTGCTGTAATCCAAATGCTTCATTTGAAAATAATACAAAACAAAAAAACCCAGGTTAATAAGCATTCACAGATGGTAGCATGATTAGAACTGGGATTCTTTTCTCATTGACTGCCAATCCATTTGTGTTTTCACTATACTGTGTATCTTGGGGATGCTGAAGTTTCTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTCTGTCGCCCACGCTGGAGTGCAGTGGCACGATCTCAGCTCACTGCAACCTCCACCTCCGGGGTTCAAGAGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCGCGCCACCACACCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCTCCATGTTGCTCAGGCTGGTCTCAAACTCCTGACCTTGTGATCCGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCAGCCAGGGATGCTGAAGTTTCATAAGAAAAGTGATCTTGCTATTGGGAAAGGGAAGAAGATTGGAAAACAGTGTCATAGGATAGTGGTAGTTGAGCCCAGGAGTGGGAAACTACTAAAAAAGGCCTGTTATGGATCAGCTTTGGGGATAAAGCAAAACAGCATAACCAATACGAATAAATGCATTGTCCACAACCACCAGAAGATAGAAGCATTGCTGACAGTCATACGTATTGTTCGTGTTGGCCTTCCCTGTTCTTTGAAGTGGAAGAAGAGAAAGGGTGTCTGAAACCTAAACCAGGTCTCAGTGAATGATGTCAGTTCTCTTAGGCTGGTCCTGAAAGACACACTCCTCTACCAAAGTAGCTTCAATTCCACAGAGAACAGAATTGGAGATGACAAGGGAGAAAACTAGAAAGCAGGTAAAGCATAGTCACAACAGTAGCCATAGTCCAGACAATACTTCTTTGAGTTAGATGTCATCAGAAAGCAGACCAGACTGGGAACACAGTGCCCACACCTGGGTCTCTGAGCTTAGGTGTCTTACAGTTCTTTCCTCACTTTTCTGTCTTTGGTCTCATCCCACCCAG
Seq C2 exon
GTATCGAAGGATGATCGCAGTGATGTGGAGAGCAGCTCAGAGGAAGAAGATGTGACCACCTGCACAAAAAGTCCCTGTGACAGTAGCTCCAGCAATGGTGCCAATCGGGTGAATGGTCACATGGGAGGCAGCTACTGGGCTGAAGAGTAAGGTGGTTGCTATAGGGACTTCAGCACACATGGACTTGTAGGGCCACTGGCAACATACTCCTCTTGGCCCTTCCCATATCTACTCTTCTGTGATTGGGAGACTGCAAGGCACTGAGGAGTATCAAAGAAGCAAATATTTTCACTTTGAAAGAAAACTGCCATTTTGTATTTAATAGCCTCCAGGTTCTTTCAGTAATGTTATTTGCTCTGTGTGTTTTTGTGTGTTTGTTGATGTGCGTTTGTGCATATGCGTGAGTTTCATTGCCGGGGTTGGGGCACAATTGTGGACTGGGGCCATGAGGCCTTCCCTGGTCCCCACTGAACCCACCTTAGTTCCACATTTGGCTGCATCTTGAATTATGCCAACTCCAGACTTCTCCTTCTTTTTTGCCCTTGGCTCTTGACACTCTAAACCCCTGGACCATCTGAATGGAGCAGCCAAGTTCAGTCCCACATTTCTGTACTGTTCCTCTTTCACAGCTGGAATATGTCACATGATGAAGTTGTATAGAAACAGAACCATGGATGGATGGCCAGGATTGCCGTGGTCCCTAGCTAGATCCCCTTCCTATCAATCACCTGATAGCAACAGGGACAGCTGCCAATACCCTGCTCTTTACTCAATGGTACCCAGGGAGGGAGCATGGGAAGAGGGTGAGCTGAGGGCTGGAGGAGGGCAACAGCCACTGGGTGAGCTGTTCACGGTCTTATACTATTGTTTGTTTGTGATTAAAAGTGCTTCAACCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139624-LASS5:NM_147190:9
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=0.367
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.8=89.5)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
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)