HsaINT0090216 @ hg19
Intron Retention
Gene
ENSG00000053747 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:6483]
Coordinates
chr18:21390330-21393067:+
Coord C1 exon
chr18:21390330-21390467
Coord A exon
chr18:21390468-21393020
Coord C2 exon
chr18:21393021-21393067
Length
2553 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
AATTTCTGAATCATATTCAGGTT
3' ss Score
6.4
Exon sequences
Seq C1 exon
CCTGCTGGTGTTCAGCCCTTGGATCCTACCAGATGCCCTGCAGCTCAGTGACTGGACAGTGTGAATGTCGGCCAGGAGTTACAGGACAGCGGTGTGACAGGTGTCTCTCAGGAGCTTATGATTTCCCCCACTGCCAAG
Seq A exon
GTAGGAAAGTCAGCAGATTGCTAGAGGGCTGGTTCCTCTCTGAAGTGTGTGCAGCCAGCCTCCCAGAGAAGCCTGCAAATCCCCCACAGACTCACCACTGGCCACCCCCACATCCTGCTTTCACAGATCTAGTCTGCTTGGTTCCTCACCTGTTCAAGTCTGGTTTGAAAACACGTATATCATATATGTACCCTCAAAGGAATCCAGAAATGATTTTTTTAACTAAAAATAATGTAAATTTCCATGTGCTATACATGTGGGTTTCTTGGTTCACATGTCAGTTTTCTGTGGATAGCATTGTGGCATAGGTGACTCCTTTGAGTTAAAGGGGCCATTTGTTGTCTTCTGTCCCGAGGCATCATGCCTTCTTTCGCTCCCAGCTTGTGGTGCTAATGCTGGCAGCACTGTAATGTTTCTAACAGATCCACTTGCCAGCAGGCTTAGCAGGACCTTTGCTGTGTTTCGGGCCTCTCTCCCTGCCCTCCTCTGGCCTTCTGGGGGACCGTGTCATCGTACTTCAGCCCAAGTGTTGGGGAAGGCGGGTGGGATGCACTGGAGTCTATGCAGTTTGGAGAGAGTGCACTGAGGGGGAGATGAAAACCAAGCCTGCAGCTGTGGGACGTGGTTGGTATTCATCCCTCTGTTGATATGAGAGATTAAGGCTTGCCCATGTACCATGGCAGAGGGGACAGAAATGAGATGTCCACAAATTTCCCTGGGCTCCCTGGTGTGTGCAGCCAGAGAGCAGACCAGTAGCTCTTGTCAATTTCGGAGAACTCTTGCTACTGTGAAGAGGTGTTTGTGGAAGGCTGACCCAGACTATCCATCAGGAGAATGTGGTTTCTCAGACCCCTTCCTGCGCTTTGAAGACAGGACTGACTTCATTTCCCAGAATCTTCCTAACCAGAATCCTCTGGAGACCAGGTTTCCTTGAGGGTGGAAGTTGCAGCAGGCAGTCAGAGGTGGGTGCTTGCCTTTCAAAAGGCCTGAAGGTCCCTAGGATGCGAGGGCATCCTGCATGGGTCTGCTCACCTCCATGGGCCTCAGGAGCAGAAGGAAGTGCTGTGGCTGCCTGGCAGAGAAGCTGAGCAGCCACAGTCATCCCAGGGCTAGATGGCAATGTTTGTGTCCTGGAGAGGAACCCGAGGTTGGGCATGGAAAACAAACAGCTGGAAATTTGTGTTGGGTATTACGGAAAAATGCAGGGAACAGGAGAACATCAGAAAAGAAAGAGAGGGCAGGGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGAGGATTGCTTGAGGCCAGGAGTTGGAGACCAGCCTGGGCAACATAATGAGATCCTGTCTCTAGAATTTTTATTTATTTTTGATTTTATTTTATTTTTTTTTGAGACAGAGTCTCGCTCTGTCCCCCAGGCTGGAGTGCAGCGGCATGATCTCAGCTCACTGCGAGCTCTGCCTCACGGGTTCAAGCGATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGATTACAGGCATGTGCCACCATGCCTAGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTCAGCCAGGATGATCTTGATCTCCTGACCTCGTGATTTGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACTCCCAGCCTCTAGAAAATATTTTTTAAAATAACCGGGCATGGTGGTGCATGCCTGTCATTCCAGCTCCTCAGAAGGATGAGGTGAGAGGATCACTTGAGCCCAGGCATTGGAGGTTGCAGTGAGCTATGATCGTGCCACTGCACTCCAACCTGGAAGACAGAGCAAGACCCTGTCTCAAAAAAGAGAGTGAGAGAGAGAATGAAAATCATCAAGGGGAAGCTGAGGCAGACAGAAGCAAACAAAGCCAATAGGGTTAAGGAACAATTTATAAGCAAACAAGATCCTATTATGGATTTATTTAAATGATTTGAAAAACCAGACTCAGAACAGACTTACCCAGTTCAAACACTGTGTAATTGTAATACTGAAACATTGCAAGATCCCAATTTATTGAAGAGAGATTATATTTGGTTTGTAGTGTTATACTAAGTCAGGAAAACAAACCAATTGATTTTATAAATAACTTTAGTACGGGTGGGAACAAGGAGGTGTGATAATTAAAGATGTACTTAGAAATTCTAGAACGTCTTTTAAATGGGCAATTAAAAGTCTCTTGGTACAATATTGCCCTCTTCTGGACAATACTAATGATGCTCAAAATTTTAGAATCTTTCCCTAATCTCCTCCTTCATCATCAATTAGAAGTGAACTGTCATGAGTAGACAGGATAGGGATTTGTTCAGTGGCAAAAGAGGTAATTTGGGGATTAAGGACCATAAATGTCATTCAAGATGCCTGACTATGAATTGCATGCAGACTTTGCCACACATCTATCGAAAATATAAATGTAGATACACTATTTTTGAAAACAAAACGTTTAAAACTTGAAACATCAAAACAAAGAGAAAAACAAACTACCAGATAATTTAAAAATTTCTGAATCATATTCAG
Seq C2 exon
GTTCCAGCAGTGCTTGTGACCCAGCTGGTACCATCAACTCCAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000053747-LAMA3:NM_001127717:13
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:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=PU(88.2=95.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(9.8=31.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- 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)