GgaINT0036782 @ galGal3
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
NA
Coordinates
chr8:7847809-7848158:+
Coord C1 exon
chr8:7847809-7847945
Coord A exon
chr8:7847946-7848035
Coord C2 exon
chr8:7848036-7848158
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCTCCTTGTTTGCCCTCCAGGTC
3' ss Score
11.9
Exon sequences
Seq C1 exon
GTGCAAACAAAACTTCTATAACTTGGATGCCAGGAACCCAGCTGGGTGCTCTCCGTGCTTCTGCTACGGACATTCATCCTCATGTGTCAGTGCTGAGAATTACAGCATCCACAAGATCACCTCCAGCTTCCAGCAAG
Seq A exon
GTGAGGCTGAGCAGGATGTCCCCACAGCCTCAGGGCTGGCATACCAGGAGGGGTTTGACTGGGGGTGCCTTCTCCTTGTTTGCCCTCCAG
Seq C2 exon
GTCCTGAAGGATGGACAGGTGTCCATGAGGACAGATCCCCAACCGAACTCCAATGGTCTCCACGCCACCAGGATGTGTTCATAGCTGCGAGGAGATGGGAAGCACTGTACTTTGTGGCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.310
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(35.6=34.0)
A:
NA
C2:
PF0005213=Laminin_B=PU(3.8=11.9)
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:
CGTGCTTCTGCTACGGACATT
R:
CCCATCTCCTCGCAGCTATGA
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]