HsaINT0090531 @ hg38
Intron Retention
Gene
ENSG00000058085 | LAMC2
Description
laminin subunit gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr1:183226698-183227697:+
Coord C1 exon
chr1:183226698-183226916
Coord A exon
chr1:183226917-183227514
Coord C2 exon
chr1:183227515-183227697
Length
598 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CACTCTTCTCCTACCCCCAGGAG
3' ss Score
10.71
Exon sequences
Seq C1 exon
GTACTGGGTACATTGACAATGTGACCCTGATTTCAGCCCGCCCTGTCTCTGGAGCCCCAGCACCCTGGGTTGAACAGTGTATATGTCCTGTTGGGTACAAGGGGCAATTCTGCCAGGATTGTGCTTCTGGCTACAAGAGAGATTCAGCGAGACTGGGGCCTTTTGGCACCTGTATTCCTTGTAACTGTCAAGGGGGAGGGGCCTGTGATCCAGACACAG
Seq A exon
GTGAGTGAAATGACACCTGGACCAGGTGGCTGGGGTGTCATGTGGAAGAGAGAGAGCTGTGTAAGAAAGACCATGGCTGAACTCACATCAGAGGTGGGAAAGGATTAAGGAGAGCAGAGCTGGAGTCAGGGAAGATGGACATGGTGCCTTATTACACTCAATCCTCTTCACTGTGGAAATGCCACAAAGTTGTGAGAAAGGTGCCAGGTTACAGGAAATGGTCGTCATGGTTCAGTGCTGGGTAGAAGAGTTGGTGTCGAGTTCCAAGAATTGTGTGGGGAGATCAAAGACAAGTCCGGGTCTAAATGAATGTGCCGACAAATGGTGTCAGGCCACAGAGAACATGGGGAACAGTGTTAAGTTATGGATAGTAAAAGAAGTGAGTGTCTACTTTGCATAGGGGAGTGAGGGTGAGATTCAGGGTCTTGGCCATGTTTAGATTTGGTTCTATGGGAGGGGTGAATGCCAGTGCTCAGGCACTTTGGGGAAGGCTTCAGAAAGGAAGGCTTTGACATTCTACACTCTGACCCATGTTGAAGGAAATGTATTGTCTGACCCTGCTCACTTCTCTGCCCCTCCACTCTTCTCCTACCCCCAG
Seq C2 exon
GAGATTGTTATTCAGGGGATGAGAATCCTGACATTGAGTGTGCTGACTGCCCAATTGGTTTCTACAACGATCCGCACGACCCCCGCAGCTGCAAGCCATGTCCCTGTCATAACGGGTTCAGCTGCTCAGTGATGCCGGAGACGGAGGAGGTGGTGTGCAATAACTGCCCTCCCGGGGTCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000058085:ENST00000264144:9
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:
PF0005213=Laminin_B=PD(18.3=32.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(52.8=45.2)
Main Inclusion Isoform:
NA
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:
ATGTGACCCTGATTTCAGCCC
R:
CACACCACCTCCTCCGTCTC
Band lengths:
358-956
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