HsaINT0090235 @ hg38
Intron Retention
Gene
ENSG00000053747 | LAMA3
Description
laminin subunit alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr18:23845009-23846508:+
Coord C1 exon
chr18:23845009-23845124
Coord A exon
chr18:23845125-23846296
Coord C2 exon
chr18:23846297-23846508
Length
1172 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
AGTTGTTTCTGTCTCCACAGCCC
3' ss Score
9.47
Exon sequences
Seq C1 exon
GTCCGTGTTCTAGTGGTGCCTGCAGAAAACTATGACTACCAAATACTTCACAAAAAATCCATGGACAAGTCACTCGAGTTTATCACCAATTGTGGAAAAAACAGCTTTTACCTTGA
Seq A exon
GTGAGTATCACTTTGTGGGAAGGCTCTGGAATGCAGAGGCACTCCCACATTCCTGACCAGCTCGAGGCCCAGGGAGGGGCTGGCCCATGGATCCGTCCTCTTCCCCGCACTGCCCAAGAGAGTGTCAGTGAGTCCCAGGGGAAGATGCTCTTTCTCCACACCAACCCTCGCATGACAGACTTTGCCATGTGCTGCCTGGGAAAGATGACTGTCCTCAGCTATGAACTCAACGGGGGTCCGTACCCCAAGCTGAGATTCAGGGGCTGATTAGGAGTTTCCTTCCCTCTCCACTGTTTCCTGTGTGCCAGCACAGATTCCTAAGACATACCACACAGGGTACCCTCCACTGGGAAGGACATCAGCCCTGAGTCCCACTCTCCTCCGCCATCTAACCAAGCAGGGAGTGTCCAGAGACATGGCTTCCCTGCCCTCTCTCCTTGTGTCCTTGAATGCTAAGAGCTAGGATGGCCCTGAGTATCAGCTCCTGCCATTCTCTTCTGTGGACCCACCCTTTCCCTGTCATAGATTCCTGAAGAGCCCAGGTACTCCAGAAGCTCTGGGAGGCAGACACCTCCTGTACAGTGAATATTAAGAGCAAAGGCTCTTAAGCAGCTGTGGAGGTGAATGCTGCTCAGCCACTCCATAACCTTGCAGCCTTGGGAATGTCACCTAACTTCTAGGAGCCTCAGTTGCCTTATCTGTGAATTAGGGCTTAGGCCTAATTGGTTGGGAGGTTGGAAGGTCATGTGGGATATTACTAAGGTTTCCAGCACACAACATTCAATGAATGATAGCGATTCTCCTCCTCATTATCATTTTATTAGTTGTATTATTATACACATAGGTCGACTTTTTTGGTAACCACTTTATTGAGCTATAATTCACATAACATATAGTTCATCTTTTAGGTCTATTTCTACTCTTTTATCCCAGCTGTGCAAGGTTCCCGCTGACCTGTTCTGTGATGTCTCCTCCTGTGGCAGGTGGTAGGGGGAGGGTGTGGCTGTCACCGGCTGAGTCTGAGGTGGGGTATTTCCCACTCTTCCCTGACTCCAGAACCATGAGCCCGTCCCACAGATGCTGCTGGGTGGAGCAGGTGGTAAAGGCAAGGTTGAGGCCACTCCCATACACACCTCCCCAGGCATCACCATGAGTTGTTTCTGTCTCCACAG
Seq C2 exon
CCCCCAGACAGCCTCCAGATTCTGTAAGAATTCCGCCAGGTCCCTGGTGGCCTTTTACCACAAGGGCGCCCTGCCTTGTGAGTGCCACCCCACTGGGGCCACCGGCCCTCACTGCAGCCCTGAGGGTGGGCAGTGCCCATGCCAGCCCAACGTCATCGGGCGGCAGTGCACCCGCTGTGCAACAGGCCACTACGGATTCCCACGCTGCAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000053747:ENST00000313654:30
Average complexity
IR
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:
PF0005319=Laminin_EGF=PU(91.8=62.5)
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:
GTCCGTGTTCTAGTGGTGCCT
R:
TTGCAGCGTGGGAATCCGTA
Band lengths:
326-1498
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