GgaINT0035380 @ galGal4
Intron Retention
Gene
ENSGALG00000004620 | LAMC1
Description
laminin, gamma 1 (formerly LAMB2) [Source:HGNC Symbol;Acc:HGNC:6492]
Coordinates
chr8:7484892-7485229:+
Coord C1 exon
chr8:7484892-7484990
Coord A exon
chr8:7484991-7485092
Coord C2 exon
chr8:7485093-7485229
Length
102 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTTTTCCTTTGCATCTTCAGATG
3' ss Score
10.97
Exon sequences
Seq C1 exon
GCCCTGTTCTTGCAATCCTGCTGGCAGCACAGGTGAATGCAACATGGAAACAGGACGGTGTACTTGCAAGGACAACGTTGAGGGCTTCCACTGTGAGAG
Seq A exon
GTGAGTTCTCTTCCTGTGGCTTTGTTTCAAGAATGAGAAGTATTTGAGCAATGGCCTGGAGTAAGAACAGGGAAATGAATCCTTTTTCCTTTGCATCTTCAG
Seq C2 exon
ATGCAAACCTGGGTTTTTCCATCTGGATCCCTCAAATCCAAGAGGCTGTACCCCCTGCTTCTGTTTTGGACACTCTTCGGTTTGCACCAATGCCATTGGCTACAGCGTGTACAGCATCACCTCCAGCTTTCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004620:ENSGALT00000039414:7
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:
PF0005319=Laminin_EGF=PU(64.6=91.2)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(33.3=34.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGTTCTTGCAATCCTG
R:
AACTGAAAGCTGGAGGTGATGC
Band lengths:
234-336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]