HsaINT0090233 @ hg19
Intron Retention
Gene
ENSG00000053747 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:6483]
Coordinates
chr18:21422575-21425088:+
Coord C1 exon
chr18:21422575-21422714
Coord A exon
chr18:21422715-21424972
Coord C2 exon
chr18:21424973-21425088
Length
2258 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
TGCTGGTGGATTTCTTTCAGGTC
3' ss Score
8.37
Exon sequences
Seq C1 exon
GCTCCTTCCATGCCTCTTTTTGCCCCCATGTGCTTGGCTGCCGGGATCAAGTGATTGCCGAAGGCCAGATTGAGTTTGACATCTCAGAGCCTGAAGTGGCCGCAACTGTGAAGGTTCCAGAAGGAAAGTCCTTGGTTTTG
Seq A exon
GTGCGTTCCACTCGTTCCTCAACTTGCTCCTCACATGCCTGCCTGGCTGGCCATTCTGGGTGTCTGTTTAGCTCATGGAAATAATTCTTCCAAGGAATTGAAGTCATATTTGTAGAAAAATGTTTAAATTTTACAGCTGTCTTTTACCCCCCAATAAATAAATAAATAAAGCATGTGACAATTAAAGTCAAGGGAACTAGGACAGAAGAGAGTAGGCGTCGCCCCTCTCCACCAGCCCCTGCTTCCTCATCTGACCAGTCTCTGGAGCATTTTTCGCTCCTTTCTTCTTTTGGCCCCTGCAGCTGCTTTCTCTCTGTTTTCCCTGCTTTCTCTAGCGCTCCTTGGGTGATTTCTCTTTTCCACTTGTCACTGTGTGTTGGCGTTCCTTCCGATTTGACACCGAGCCCCTCATTGTGTCATTTCTCCTTGGATACATCTTCCGTGCCCATCGATTCTATTCTCTCCACTGTGGGAAGGACACCCACATCTGTGAGGTCATCTCTGATCTTTCCTGAACTCCAGTATGTGACCACCATCTCCTGCGTATCTGCCTGGCCAGAGATCTTGAAAGTCCCTTGCTTAGTCTGCACCCTGCATAGCCCCGATGTGCCTACCCTTTTCATCACCTTGAGTGATGACAACCAGTGCCTGGAGTCATGCTGACCCCCCTTCTCTAGCAGCTCTGCTCCCACATCTGTTACCACACCCCAGAGTCTTTCTCTGCCGTGCCTCCTGGAGGCAACCATTCTCTTCTAGCCCCGTTGTCCTCACTGACCATCCTTCCTCTCACTTGGGCAGGGCCAGCCTCCTGGCAGCACTCCCTTCCTGTTCCACCTCCTTCCAGTGCCTCCTCCGCACTCCTGGCCATTACCTACCTGGCTGGAGGGATTAGAGCATGCCCTGTGACCCAGCCACTTCTCTGGGCTTCCAACAACTGATGGGATACACTCCATGTATTTCCCTAGGATCCACGTGCCTCACTCAGGCCCTCACGACCCCCTAATTCATCTTTTATCTTTCTCTCTGCCATTGCCCTACTCCACGCCTCCCACACCTCACGCTCTGGCCATACAAATCCGTTCTCAAACCCCCAGATATGCCATGTCCTCTCATGCCACCAGGCTTTCTCACACTGTCCCTTTTTCTGACATTTTCTGTCTGTTTCTCTACCTGGATAAGTCCAGCCTACCCACTCACCCAGCTCAGAGTTAATTTGTCTTTCTGCAAAGCCCTCCAGGAAGCATTGCCCAGACTCTCTGTGTGGCCCTCCAGGTCTCTGAGTGAGCCTCCTCCTCTCTGAGGAAGTCGTCTTCCCAGGAGACAAGGGCTGCATCTGTTCATTTTGCATCCCTTGTGCCTGGAATACCACCTGGTGTGTGGTGCTCAGCAAACGTTTATTGAATTGAATATCATGAGAGTAATAAGCTCCCTGTAAGCTGTGAGCTGGTGAGCAGTTGACAAAGATGTTTGAAAATTTCTACAGTGTTTGCTATAGGCATATTCTGATTTATACTGGCACAGAGAACCAAACTACCATTATTCATAATAGGGTACCAAGTATGATGAAAGCTCTAAGGACAAGCTAACACCTTCTTTCTGCATTGTTCTTGCCACTTTTGTTTGTTTCCCTTTAAAAATACAAAACAGCCATCCCTGGAGATCCAGGGAGACATCAGGCATGGGTCACATGGAGCCCTGGCCATCCAGCAGGCCCCTGCTTACCCTTAAGGTCCCGTGACCCAGCCAGCATGCAAGGCTTTTGCTTCTCTGAGTAGAAGTTCCAAGGGCTCTGCCTGGGAACTCATCATTCCCTGCACAGTAATGTGGACTGAGCCTTTACTCCTGGCTTTGGCCTGTTCCTGTGATTGTTTTTCATAAATCCTGATTCATTTGGTCTTGGTCTTAACAATAAGGGTGTTGATCTCAGTGAAGAGAAAGTACAGGTTGAAAATCTCTTATCTGAAATGATTGGGACCAGCAGTGTTTTGGATTTCAGATTTTTTTCAGATTTTGGAATATTTGCATAATACTTACAGATTGAGCATCCCTAATTCAAAAATCCCAAATCCAAAATGCTCCAGTGAGCATTTCTTTTGAGCATGATCTTTGAGCATCATGTCAGTGCTCAAAAAGTTTCAGATTTTGAAGCATTTCAGATTTTGGATTTTTCGAGTAGGGGTGCTCAACCTGTATAATAAGTAGCCTTAGGTCTGTGTCATCATTGGAAATTCTAAGACATGCTGGTGGATTTCTTTCAG
Seq C2 exon
GTCCGTGTTCTAGTGGTGCCTGCAGAAAACTATGACTACCAAATACTTCACAAAAAATCCATGGACAAGTCACTCGAGTTTATCACCAATTGTGGAAAAAACAGCTTTTACCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000053747-LAMA3:NM_001127717:29
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:
NO
A:
NA
C2:
NO
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)