GgaINT0098632 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106317299-106317948:+
Coord C1 exon
chr2:106317299-106317436
Coord A exon
chr2:106317437-106317901
Coord C2 exon
chr2:106317902-106317948
Length
465 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
GTTTTTTAAATTTCATGAAGGAA
3' ss Score
4.53
Exon sequences
Seq C1 exon
CATGTCAGTGCTCTCCTCTCGGTTCCCGGCACAGCATTTGTGAGCCAACAACGGGGCAGTGCGAGTGTCAAACAAACGTTACAGGGAGACAGTGTGACAGATGTATTTCTGCAGCCCCCAATTTCCCCTACTGTGAAG
Seq A exon
GTAATGCTTGAGATGGAAAATCCTCCATTTGATTCATATCACTCCCCATTTTTACTGTGGGGTTCTCCTGGACGTTCTGCTTTGTGGAATTTTGTGGAAACTCGCTGAAGTGTGGGAAGGGAGGGCCACGCAGGGAGTCACAAGGAGTGCATATTAGATGAGTTCATTCATCATTCTATATGTAATTCTAAGAAAATATCTCTCAGTTGTAGGTTGGTGCTATATTTTTCCAAGTGACTGCTTTGCATACCGAAACAAACAGTCTAAACTAGGCTAAATAAACATTTGAATAACCATTATAAAAGGGTTCTGGTGGTCTTTAAGTATTTAAGTCACTCCAGGATGACTGGATTAAAGAGCCCTTTGAAAGTTGCGAATGTTATCTTGTGCTTTTCCATTACTGTATTTCACAGCTGTTCTCAAAAGATCTTTTAATGTTTTGTTTGTTTTTTAAATTTCATGAAG
Seq C2 exon
GAATCAACAGTGAATGTAACCCTTCAGGTAGCGTCGATTCTCATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:13
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=PD(0.1=0.0),PF0005319=Laminin_EGF=PU(93.8=95.7),PF0005319=Laminin_EGF=PU(5.9=6.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(4.2=12.5),PF0005319=Laminin_EGF=FE(29.4=100)
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:
ATGTCAGTGCTCTCCTCTCGG
R:
AATGAGAATCGACGCTACCTGA
Band lengths:
182-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]