GgaINT0011803 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8189371-8190416:-
Coord C1 exon
chr20:8190305-8190416
Coord A exon
chr20:8189542-8190304
Coord C2 exon
chr20:8189371-8189541
Length
763 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AGACCTGCATTTCCTTGCAGACC
3' ss Score
8.51
Exon sequences
Seq C1 exon
ATGATGATGGCTCACAGTAAAGCAAACCATTTAGAGCAGCATACAAGGGAGACTTACCAGAGAGGAGAGCAACTTCTGCTAATCATTCAAAGTATTCAGAAAAGCATTGGAG
Seq A exon
GTGGGTGAAGTGTCTCTGCTTTGTGGGTTTCTCCTGCTGGGAATGCCATGTTTTTGCTTTGCAAACAGCACAGAGTACCGCATTGCTTAGAAAGGGCTGTGGAAAAAAAGTAGGGGAAGTAAAACTGTGATGGAGATCCACACAGACTTGTGACTGTATAGGGAGACCAGGGGATATCGGCCCTCAGAGGAGGTTCCGGTTGGATATTAGGAAACATTTCTTCTCCAAAAGAGCAGTGCTGCAGTGGCACAGCTGCCCAGGGAGGTGGTGGGGTCACCGTCCCTGGAGGTGTTCCAGAACCCTGGGGGGGCGGCACTGAGGGACCTGGGCAGTGGGCAGTGGGCACAGTGGGGTGGGCTGGGGTTAGAATTGGGGATCTTAGAGGTCTTTTCCAACCTCACTGATTCTGATTGTGAGTCCCAGCTTGTTAGGCTGAACACCATGTGTGGAAAAATATGTTAAAGCGGCACAAATATTATTAAAAAGCATAGAACTGGCCTTTCAGGAGAGATTTAGCAAAACAGAGGGGGACTTGGATCTAGGAGAGGAGGCAAAGCCACAGGAAGGTGATTGGGATGTAGCACACATTTCTGGTCATGGCCCAGGGGACAGAAATGTGGCACTGCCCTCAAGTGGTGTCTCAGTCTGAGTGCCCAAGCAGTGCACAGAGGCTGCCTGCATTTTGGTGGGAGTAAGAGATGGAAGGTCTCAGCTGCAAAGGGACCGGGGTGAGGATGCTGATGAGACCTGCATTTCCTTGCAG
Seq C2 exon
ACCTGGTGCGGCAGATGGCCACGTTTGGGGCAGCAAACACCAGCACCACCTCCACTGAGGAGTTTCGGCAGAAGATGGCAGAGGTGGAGAGGATGCTGAGGGAGATGAAGCAGCGGAGCCTGGGTGGCCAGGAGGAGCTGGCAAGGCGTGAGCACAAGGAGGCTCAGAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=NA C2=0.793
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(14.0=100)
A:
NA
C2:
PF060089=Laminin_I=FE(21.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGATGGCTCACAGTAAAGCA
R:
CTTCTGAGCCTCCTTGTGCTC
Band lengths:
281-1044
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]