HsaINT0090259 @ hg19
Intron Retention
Gene
ENSG00000112769 | LAMA4
Description
laminin, alpha 4 [Source:HGNC Symbol;Acc:6484]
Coordinates
chr6:112469359-112471829:-
Coord C1 exon
chr6:112471713-112471829
Coord A exon
chr6:112469539-112471712
Coord C2 exon
chr6:112469359-112469538
Length
2174 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
ACCCTGTGCTCTGTGTAAAGGGG
3' ss Score
5.94
Exon sequences
Seq C1 exon
GCAGTGATGAAGCAGTGGCTGACACTAGCAGGCGTGTGGGTGGAGCCCTAGCAAGGAAAAGTGCCCTTAAAACCAGACTCAGTGATGCCGTTAAGCAACTACAAGCAGCAGAGAGAG
Seq A exon
GTAAGCATCAGAGAGAATTGAAGTCTCATCTGTTGATTCACTGGAGTGTAAGGTAAACCTTCAAGGAAGGATTAGGTAATTCTTTGTTTGTCAATGATTTTATACATAAATGTTATTTTCTGATGACAAAATACGTTCATCACAAAAAAAAGTTCTAGAAAACAAAAAGAAGAAACTAAATATAAATGCTGTAATCACACCACGTAGAGGTGACCTTTAGATTTGAGAGCCTTTTTTTCCAGCATTGCCTCTGTGTGTGTGTGTCTGTGTGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTTTTAATGGGATCATGCTGTTTATAGTGTTTGGTAATGGCTTTCTTATGAACATCCTTCCTCATAACAATATGCCCTAATTTGGTTATTGGATTTCTTTGGCCCAGCTGTAAACAGCTTCCCTCTGTTACATGTCAAGTCATTCTTACCATATAAGCAACAGGCCCAGAGACCAAATAGAAACCAGGGAGACCAACAAGCCCAAATAGAGAAACAAAAGCACACGTTTTGCTTAATCTGGGACTGCAGTGGTATCTTAGATAGATGTGATTGGAAGCAGATGTGCCTTCCTTCGCGCAGTGAAAGTTAAAAAACTAGTGCAGCATATGGGTGTTTTACTAGAATGAGCAAATCCTAGCTACAGTGCTACAGTGCACCAAAGCTCTGGCCAGGAGAGTGGTCCTTCATGGAGAAGCCTCATCATCACCGTCATCAGAATGACTGTTTATTGATGCTTAGTGTGAGCTGGGCATTGTCCTAAGTGTTCAACATAGCTGTATTAGTCCGTTCTCACGCTGCTATGAAGAAATAGCCAACACTGGGTAATTTATAAGAAAAGAGGTTTAATTGACTAACAGTTCTGCATGGCTGGGGAGGCCTCAGGAAAACTACAGTCATGGCAGAAAGCACCTCTTTACAGGGTGACAGGAGAGAGAATGATTGCTGAGCAAAGGGGAAATGCCAGACACTTATAAAACCACGAGATCTCATGAGAACTCACTATCACAAGAATAGCATGGGGAAAACTGTCCCCATGATCCAATTATTTCCCACCCATCCCTCCCATGACACATGGGGATTATGGAAGATTACAATTCAAGATGAGATTTGGGTGGGAACACAGCCAACCATATTAATACTTTATGTCATGGGGATAAGTACCACTACTGCCTTCAGGCTGATATGAACCCTGAGGTTCATGAAGGTTAGGGAACTTGCTGCAACAGGCACAGCCAGTAAGAAGCAGATTCAGGATTGAAACTAGCATTTATCAGAATCCAGAATATGTGAGGCTAAATGAAATATATCCTCACTTTAATAAATTATTTATTATTTATATATTATTAAATTAAGTATTATTTTTATAATAAAAATAATTATAATTCACTTAGGTGATGGTATAACTTCAAATTTATAATTGTTTTACAGTTCTAATTACATTACAGTTGGGGCCAAAGAAATCCAATAACCAAATTAGGTCATATAACCAATCCAATAACCAAATTAGGGCACAACTTCAAATTTATAAAATTTGAAGTTATAAAGTCACCTAAATGAATTATAATTATTTTTATAAAAATAATAAATAATTCTCATAGAAATATTAGAAAATGCAGATAAGAAAAAAAGAAGAAAATCACCTATAATCCCATCCCCTAGACAAAATTTTTTGTTGTAAATTTACATCATGGTTATTTTAAAGATGTAATTTTTAACAAAAATGGGAATTCACTACTAAAACTCTTTGAAATTTGCTTTTTTTCTATTAAAAAAATATCTTTCTTTATTGATTAACTTCTATAGAATCATTTTTATGGCAGAAGTGTTCCACAAGCCTACTTTTTCATAAAAGACAGTGATATTTGCAATTAATTTCAGACACAAACCTCTTATGAGTTAAAATCTCATGTGCATTTTCTATGGCTTTCTTACCAGGTTATAGGAAATACAATTACTCTTCTTTTTAAATTTACCTCTTAATTTGGAAATGTTTTCGGTGAGCCACATGGTTATCCAAAAATCTTACTTTTGCTTAAGAGCCCAAAATGTGAGATCTGTTTCATTCAAGGGTTAAAGGGGTGTTAATGTTCCCCAACAAATATCCGGCTTCTCTGCAAAGTGAATGACCCTGTGCTCTGTGTAAAG
Seq C2 exon
GGGATGCCCAGCAGCGCCTGGGGCAGTCTAGACTGATCACCGAGGAAGCCAACAGGACGACGATGGAGGTGCAGCAGGCCACTGCCCCCATGGCCAACAATCTAACCAACTGGTCACAGAATCTTCAACATTTTGACTCTTCTGCTTACAACACTGCAGTGAACTCTGCTAGGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112769-LAMA4:NM_002290:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.689
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.8=83.6)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- 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)