GgaINT0098688 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106385241-106386193:+
Coord C1 exon
chr2:106385241-106385430
Coord A exon
chr2:106385431-106386043
Coord C2 exon
chr2:106386044-106386193
Length
613 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TATTTTTGTACCCTGAAAAGGTG
3' ss Score
4.8
Exon sequences
Seq C1 exon
GTTACATTTTTCTGTGGATATACGAACTCGATCATCAAGAGGATTAATAGTTTTTATGGAGGGAAGGTCTGAGAACTCTTACACAGCTCTCCACATTTCAAAAGGCCGTTTTGTCTTTTCGCTTGGTTCTGGAAGAAGACGAATCAAGATCAAAACTAGTGTTAAATACAATGATGGGCAATGGCATACT
Seq A exon
GTAAGTAGTATGACACAGAAACCATGTTAAACCGTGACTAGCGTTCAGTAGGCACAGTCTGAATTTCTAAGTTATTAGGCAGAGGCAGGGAAGGAAAAAGTGAAATTGTTCCTTTTGGCCATCTGATTAAGTTAATTCATATTCCTCAAAGCTCACGTGACTGACAGGTCTCTGTTATGAGAGAACTTGCAGAGACTGATGGTCACAGCACGTTATTTTCAGTTTAAATATTTCAACATCTCCCAAACGGATCACCAAGATGCAGAATACAGTGAGGTGTCTGATTTCAGTCACACACACAGTGAGTGTGGAGTGACACCATTCGCAAACCCCAGCAAGATGACCAGAATCTGAAGCTCTGACAGTCTGAATGGTTGACTTGCAAGGTGCTCCTCATTTTTAAACCATCCTGATATTCAATTGAAATACCTTATTTATCCTCTTCCATTTCTACTTTTGCTAGTTTCAGACTAGCCTGAAAAATATTCTATTTATACTGTATATGATTCACTTTCTAAAAACACAGTTTTTCAGTTGCTGTTTGGTACGCTAGCTCTAATGGCTTTCATTGGCATTGGGGTTTCTCATTCTATTATTTTTGTACCCTGAAAAG
Seq C2 exon
GTGGTATGCAGCAGAGATGGGGAGAATGTCCTCCTTGTTGTTGATGGTCTGAGAGCTCAACATGGAAGATTGGGAAGATTAGGAAGAGCTTCCACCAATGACATTAAGCCACCAGTCTACCTGGGAGGGCCGCCATTGCTGAAAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:69
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=0.040
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PU(44.4=87.5)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(38.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTTTTCTGTGGATATACGAACTCG
R:
CGGCCCTCCCAGGTAGAC
Band lengths:
318-931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]