HsaINT0090553 @ hg19
Intron Retention
Gene
ENSG00000050555 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:6494]
Coordinates
chr9:133911553-133914439:+
Coord C1 exon
chr9:133911553-133911719
Coord A exon
chr9:133911720-133914250
Coord C2 exon
chr9:133914251-133914439
Length
2531 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
TTCCCCACTCCTGCCCATAGCCT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTGCAAGTGCAACGGGCATGCCAGCGAGTGCGGCCCCGACGTGGCAGGCCAGTTGGCCTGCCGGTGCCAGCACAACACCACCGGCACAGACTGTGAGCGCTGCCTGCCCTTCTTCCAGGACCGCCCGTGGGCCCGGGGCACCGCCGAGGCTGCCCACGAGTGTCTGC
Seq A exon
GTGAGTGTCTGAGTGTCACAGGGCATCAGGGACCCGAGGCTGGTGTTGCAGGCGGGGAAAGGAACTCCCCAAAACGTCGTGGTGGGGGCTGCTCCTGGGTACGCCCCGGGGGCAGCTCGGGGTCTCTGTGCTGCTGCAGAGATAAGGACGAGCAGAAGGGGAGCCTGGGGAGGGGGTGCATTTAAGCCTCAGTCTCTCCTCCACTAAGTAGCTTCCCTGGACCAACTCTACCCATGCAGAGGCGCCTGTGGTGGGAGGGCCGGAAGGTCCCCGACTTGCTTCTTTGTGTTAACCGCTCCCACCCCAGCTGCTAATCGGAACCAGGCTACCCAACAAGCAAGGGGGTGCTGATGGCCCACCCAGCCTCTCCCACGGGCCCCCAGGCAGCCCTTTGGTGTCCCAGCCCCCATGTGATGTGGCTTTGACCACCTAACCTCAGAGAAGCGCTGGAGAGAGGATGATGCCATCATGTCTTCTCCAGGGACACAGGCCAAGAGCAGGGACCCACTGACTTCCCTTCTGGCTGGGGCACTGGCTGCAAGCCCCACCCTGTCCCCAGACAGCCTGGTTTCCTCCAGGCTCTCCATGCACAGCCGCCGTTGCTGGGGGCCAGATCCCAGCTGGTGCTGGTGCTGCTGGCAGGAGACACATCTTCACTCACAGGCTCGCTGGGCGGGCAGCTTGGCCTCTGGACCCCGCTGTCCTCTTGGGCCTGGGCCACTGGCGACCAGAACTGGGGCTGGGCCGGGGGCGGCTTGTTCTGAGGGTGGGGCACTGTCTGCAGGAGCTGCCCTCGCTGGCCTGCCTCCACCAGAGAGTCCTGGGGCCAAGGAAGCTGTGCTGGCTGGCTTCCACTGTCCCAGCCTGCTGCTGTCTCCATGGTGGGGACACAGAGGCCAGACTGCTTCTACCATGTCCTCAGCTCCATGGTCACGTCTGTCTCTCAGTCAGCAGCCTGGGAGCCAGGGTTTCAGGCTTGACCCTTCATCCCCACCCTCACCCGCAGCTGAGACAGCCCCGAGCCCTGAATTCCGCCTCATCCACATCGCTCCAGTCTGTCTAACTTCTGTCCATTGCAGCCGATGCCTTGGGCCTGGCCCTGCCTCCTCTCCCTGCACACCCGAAGCTTCCTCTTCCCTGCTCTCCCTGTTCCCAGCCCTCCCCTAACTGCAGCTAAGGCTCTTTTCTTGAAACACGGCCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCCCAATCATAGCTCACTGCAGCCTCGAATTCCTGGGTGCGTGTTCCTCCTACCTCAGCCACTAGAGTAGCTGAGACTACAGGCACATACATCACCATGCCAAGCAATGTTTTATAGAGCTCGGCTCTCACTGTTGCCCAGGCTGGTCTTTACACTCCTAGGCTCAAGCAGTCCTCCTACCTTACCTTCCAAAGTGCTGGGATCACAGGCGTGAGCCATGGCACTGGGCCAAGACTTTCTAAAGGACAAATTTAGTAACATCTATTCCCTGCTTAAACCTTCCCACGGCTCCCCCTTTGCTCCCAGCTAACGTCCACTGACCACGGCAGCCCAGCCTCCCTGGAGCAAGCTCTGCTAGCCTCTGACTTCACAACTGCCCCTGCACTGCAGGCCCCCCACTGCACAAAGTCCTTCCTTCCCTGCCATCACACGACATGCCGTCTGCAGCCAGCCTCATGGCACACCCGCACCAGGCCACGCGTCTGTCTCTGCATGTGGGGTATCCCCTGGGCTTTCGCCTCCTGTCTGCGACGCCCTTCCCGCCCCCTCTTCCTCTGCCTGGCCTATTCCTCACTGCTCAGCCTTCAGATTCAGCGCGGCCATGACTTCCTCTCGGAAGCCTTGTCCCACCACCCCAGCACAGCTGCAGGGGCCCCTTCTTTCGGCTCCCAAAGCCCCCAGCCTCTCCTGTCTCAGCCCTGCACCTGCAGGGGGTTTGCTTGCTTGCCGTCTGGGCTGTGGGCAGCACGAGGGCGGCAGGTGTAAATGGGTCCGCACCTTTCATGGATCCACCCCTGAGCTCACTCTGGGAGCCAAGACAGAGCCAGTCCTGCACACAGACTTTTAAAAATGATTTAATGGGGGAAATGAAAGGTGACTTGTGCTTTCTGTACCCCTGAGTGACCTCACACAATAGTGAGAGTCACACTATTATGGCTTGGAGGACCTCCAGGAGATTTTGGAGAGAGCCAAGCTGCCACTCCAGAAGGCAGCCAGCCTCTGATCGGTGCCCATCTATCTGGGTGTATATCCTTGTTGCCTGGGATGGTCTTCTTTCTGCCTGTTGTTTTGGTGTATTTACTAACAGTGTCCCCTTTGCTCTTAAGAGTGTCCTGTTTTGGAAAATCAATTGATCAATGTCTAGCCTTGATCAAGCTGGGCCTGAACTCCATTCTGGACCATGCTCTTGCCCTTCTCTTTGCACTGCCTGCTCATTTAGCACAGGGAGGCTGACTGACACAGATGCAGCCTCCTACCACATCACAGGGGACTCACACACCTTTCCCCACTCCTGCCCATAG
Seq C2 exon
CCTGCAACTGCAGTGGCCGCTCCGAGGAATGCACGTTTGATCGGGAGCTCTTCCGCAGCACAGGCCACGGCGGGCGCTGTCACCACTGCCGTGACCACACAGCTGGGCCACACTGTGAGCGCTGTCAGGAGAATTTCTATCACTGGGACCCGCGGATGCCATGCCAGCCCTGTGACTGCCAGTCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050555-LAMC3:NM_006059:4
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=WD(100=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=84.4),PF0005319=Laminin_EGF=PU(13.3=9.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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
- 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)