HsaINT0090200 @ hg19
Intron Retention
Gene
ENSG00000053747 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:6483]
Coordinates
chr18:21523752-21526248:+
Coord C1 exon
chr18:21523752-21523935
Coord A exon
chr18:21523936-21526107
Coord C2 exon
chr18:21526108-21526248
Length
2172 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
GTATCTTTCTTACTCTGAAGGTG
3' ss Score
8.36
Exon sequences
Seq C1 exon
GTCACAGTTTGCTGTGGACATGCAGACAACATCCTCCAGAGGACTGGTGTTTCACACGGGCACTAAGAACTCCTTTATGGCTCTTTATCTTTCAAAAGGACGTCTGGTCTTTGCACTGGGGACAGATGGGAAAAAATTGAGGATCAAAAGCAAGGAGAAATGCAATGATGGGAAATGGCACACG
Seq A exon
GTAAGAGCTGGGGCTGTGTCAGTATCTCCAGTTGGTGTGGAATTCACTGTTGGAGTCGCTGAAAATAGGAGTCCCAGCATCCTTCCCAGACATGAGGGCGTGGAGTGGGAGAGCTTGTGTGCTTGCAGGCGCTGCGTTCCCAGCATCTCAGTACTGGAGGCCGCGGCACACACATTGCATGGCTGTCATCCTAGACAGTAAAGTCAAGATGGGCTTTACTGATGCTTCTTCCATCCCCTCCAGCCCTCCCCCAGGCTGCCTCATGCCCCTTGCCTACTCTAACTCCTTCATCCTGGACCATTTCTTCCCCTTATGGCCAATTTCCAGGCCTCCAGGCCCCTCTCTGGACCTGGAATGACCCTAGCATCTTGGCTCTTGCTTAAAGCCATTCCAGATTTCAAGAAATACCATTTAAGGCAATAAGGGACCTATTTATTTCTCTAATGAGGCAACTGGACTTCAGAAAATGTAAGTGACTTGACAAGTTGCATTCCCTTAGTCATTCAGCTGCCTTCCTGGAACACATAAGCAAACAATCCTCAATGTAATGTCAGAGATTGGTAAGTGCTTTGAGAAAACACTAGAGCAAGGTAAGAAAATGACAGAGCAGGGAGACTATTTTAAATAAGGCAGTAGAGAAAGCCCTGGTACAGCAGGTGGTAGTCACATGAAGTTATGGGGAGGGGGTTCCAGGAAGAGGGAAGAGCAAATAACAAGGACCTGGAGGTGGGAATTAGCTGAATGAACAAAACACAAAGCAATAAGAAATGGAATTAGAGAGGAAGACAGAGCCCAGATCATTTAAGCTTTGAAGGCCAAGCTCCGACTTTGGACTTTATTTGAAAGTGTCTGTAAAGCTTTTAAAGAGTCTTAAAACTCTTGGCCAGGCGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCTGATCACAAGGTCAGGAGTTCGAGACCAGCCCGACCAACATGGTGAAACCCCATCTTTACTAAAAATACAAACATTAGCTGGGCATGGTGGCATGCACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACTCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCACACCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCTGTCAAAAAAATAAAAATAAAAAAAATAAAACTCTTACATGTACAGATTCATATATTATTTAATTCTTTAGCTGAAGAGACTGCCAGGGGGCAAGAGTAGCAGCAGGGGGCCCACATGGCTGCTATTGCCTTTGCTTGCGGAGGCTGTGGGGAGGTCGGGAGAAGTGACCGCCAGGACGCATGCTGAAGGTAGAACCACGCGGCCTTGCTGATGGATCACATATAGAGGGTGAGAGGAAGAGAGGGTCCAGATCACATCCTGTGATTTGGGGCCAGCAATTGAGTCATTAGTGGGCATTTACTGAGATGAAGATGGAGAAGAGGCAGATGTGGCCAGGAGGAGAGCAGTTCAGAGCTGGGGGAGAATGAGGATTTCTGTCGTGAACATCTCAGGGTTGAGTGGCCTGTCAGACCTTCAAGCCCAGGTGTCAGCAGGCAGTAGAGGCCAAAGGTCACAGCTTGGCATATAAATGGAAGTGTCCGTAGTGAATAGTCTCACCACACCTATGAGATGGCAGAATCCACACCAGACCCCAGGGATCAGAAATTTTAGCAAAGAGTTTAAACACTCCTCTTGTTTGAAGAGAAGTGCCCTCGTTCTACCTGCTCCAAGAGGCCAGCCCAGGGTGCCACGACTCCAACACACCCCCGTCCCCAGCACTGTATAAACTGTCCCTGCCCCTTTGTTACATGGAGGGGGTTGCCTGTGGCTGTGCCTTGAACTGTTTCTCTTTTGTGTAAGTTTCCAGATGAATTCTATAATCTCTTTTGATTAGTTCACTTCTAAGCAACCTTTTTTTTTCAGTTCCCCTTTTGAGCTCAGTTTGTTCAGTATTTCACATAATCTCACAAAACGATGGTGATAGTGATAACCGGAGGAAAAAATCTCTCATCTTTTGAAGCTATTTGAAGGAGCATGAAAACATTTTTTTTTAATTTGGCCACTAATATTTAATAAAATACAACACCAATTGTCAAAGGTAAAAATACAACTCACGTATCTTTCTTACTCTGAAG
Seq C2 exon
GTGGTGTTTGGCCATGATGGGGAAAAGGGGCGCTTGGTTGTGGATGGACTGAGGGCCCGGGAGGGAAGTTTGCCTGGAAACTCCACCATCAGCATCAGAGCGCCAGTTTACCTGGGATCACCTCCATCAGGGAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000053747-LAMA3:NM_000227:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PU(44.6=87.1)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(38.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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
- 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)