GgaINT0011756 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7855687-7856860:-
Coord C1 exon
chr20:7856742-7856860
Coord A exon
chr20:7855858-7856741
Coord C2 exon
chr20:7855687-7855857
Length
884 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCCCATCCTCTCATTCACAGATT
3' ss Score
10.23
Exon sequences
Seq C1 exon
CTTCAAAGAGGGACTGCATTGAGAAATTCGGACTGCAGACCGTGGATCGCATCACCAAGGATGACCATGCTATCTGCACGACTGAGTACTCCCGAATTGTGCCCTTAGAAAATGGGGAG
Seq A exon
GTGAGCCATCACGTTTTCATCCCTTGGGGCTCTCAGGGTTTTTGTGGCTGGAAATAATAATAATAATTAAGGAAAGCTGGTTAGAAGACCGGGCATTCAAACAGACAGAAGAGTCTCCTAGAAGACAGTGGGCAATTCTTCCCTGTCTTCGTGCTTGGGTGGGTTGTGGCTGTGCCGCCAGGCTGATGGCAGCAGTGTTCCTGTTGCTTGTTTCCTTTCATACTTATGTTTACATGGGGCACCTGCCCTCAGCACAGCTAACCCAGAGGAGCTCCAGAAAGTGTCAGCGACCCGTAAGCATGTCTCCTTAATGAAGAAATGTAAGTCAAGAAGGAGGTTTTTGAGGAGAACAGCAAAGAGGAGGAGAAAATAGAAAGGGCTCAATAATATAAACTTTTAACTGGGGAGAGCTGCAGTGAAAATCCATTCTCCCATATAAGAGCAGGTAATAAGTAGGAACAGGAAGATGAGGGCAGGTGCTTGCATTGGACAGAGTTTAGAAAAGCTAAGCCCTCCAGGGGGAGGGCAGCAGGCCCTGTATTGAGCAGTGCTTGAGGGACAGAGCCATGCTGCATTCCATGCTGGAAGTTTGCTTGGGGACCAGACTTCTGGGGCTGATTTTTTGGATGTTGTTTAGTTGTTTAAGAGGGCAACAGACTTCTAGTTGTGTTATTTTTTCAGTGACCGAAGGTGCTCTGATGAAATGGTTCCCTCTTGACTTTTGGATACTGCTTAAACTGTTCATTTTTAACACAAATAAGACTGGCAGGGAATTGATTCAGTTGTCTTGAAAGAGATTAAAGATTGGGTTCAGCTGAGGGAGCCATGGTTTTCCTCCCTGTCAGAGGATGATGCTGATTTGTCTCCCATCCTCTCATTCACAG
Seq C2 exon
ATTGTTGTCTCTCTGGTAAATGGGCGCCCAGGAGCCATGAACTTCTCCTACTCTCCTCTCCTACGGAATTTCACAAAGGCCACCAACATCAGACTGCGCTTCCTGCAGACAAACACTCTGCTTGGGCACCTGATGGGCAAAGCTTTGAGGGACCCTACAGTGACCAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:5
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:
PF0005512=Laminin_N=FE(15.4=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAGAGGGACTGCATTGAGA
R:
CTCCTGGTCACTGTAGGGTCC
Band lengths:
287-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]