GgaINT0036783 @ galGal3
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
NA
Coordinates
chr8:7848036-7848641:+
Coord C1 exon
chr8:7848036-7848158
Coord A exon
chr8:7848159-7848451
Coord C2 exon
chr8:7848452-7848641
Length
293 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGC
5' ss Score
6.99
3' ss Seq
TCCTCTTCTTCCCCATACAGCCA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GTCCTGAAGGATGGACAGGTGTCCATGAGGACAGATCCCCAACCGAACTCCAATGGTCTCCACGCCACCAGGATGTGTTCATAGCTGCGAGGAGATGGGAAGCACTGTACTTTGTGGCACCTG
Seq A exon
GTAGGCATGGGGAGTATGGCACAGAGCTGAGCCCAGGCTGGAGCTGGTTTGGGGAGAATGGGGTGATTGAAGGGTCTGTGGGGCTGGGGAAGGTGTGACATGGGCAGAATGAAGGGCCTATGCTGGGGAAGGGATGTGGTACCCCAGTGCTTGCACAGCCTGGGAGATGGCAGTGGTGACAGCTGGCACAATGATACTTGGTCTGACCCCACGGAGCATGACTTTAGGAGGAAAGGAAGACTTTAAGCCTCTAATTTCTTCCTTCTGTTCTTCTCCTCTTCTTCCCCATACAG
Seq C2 exon
CCAAATTCCTCGGGAACCAACAGCTGAGCTATGGCCAGACGCTCTCCTTCGATTACCGCCTGGACCGAGGGGGACGGCTGCCTTCTCCGCATGACGTGATCCTGGAAGGAGGTGGTCTCCGAGTCACTGCCCCCTTCTTACCCTCTGGGAAGGTCCTGCCCTGTGGTGTCAGCCAGACCTACACCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.310 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005213=Laminin_B=PU(3.8=11.9)
A:
NA
C2:
PF0005213=Laminin_B=FE(48.1=100)
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:
CCTGAAGGATGGACAGGTGTC
R:
CTGACACCACAGGGCAGGA
Band lengths:
293-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]