GgaINT0112336 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14688848-14690459:-
Coord C1 exon
chr1:14690275-14690459
Coord A exon
chr1:14689090-14690274
Coord C2 exon
chr1:14688848-14689089
Length
1185 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GCTCTGTCTGATTTCTGCAGGAG
3' ss Score
8.83
Exon sequences
Seq C1 exon
CAAGCTGACAGCTGATGTTACCGTTAAGATAGCGGACATAGAAGCAAGCCTCTCAACCTTAGCAGAGAAGAGCAATAGCACCGATGCTGACCTGAGCGCGTTGGAGACAGATGCCAAAAGCCTGGATCGTGTTGTGAAGGAGCTGGCAGAACAGCTCGAGTTCATCAAGATCTCTGATGTTCGGG
Seq A exon
GTGAGTGTCACACGGAGGGGGAGAAAGCAGCGGGGTGGCTGAAGATTTAATTAGTGCATGGTTTAAAATCCCAGGTTAATCTTTTAACATGTAATGAAACTCAGATCTTAGAGGGCAGCTTCTCACTGTGCATTAGCAGCGTTGCTGATGCAGCAGAGGTTCTGTTTTGCCCCCTCGCCCCTTCCCTCTCTCCCTCTGTGCATTGCAATACCAGCTCAAGTTCCTGGGGCACGAGAACTTTAGAGGCTTCAAGACTTCAATTAAATACACTTTAGGTGGGGGCACAACAGTTGGAAGTGAAGCAGATTCCAGGATACACCTGCACCTTTCGGTTGCTTTGCCCAGGCTGTTAAATTCTGTTTGAAAAACTCCTGGGCTCTTCACGATAGGAGCACACCGCGAAGCCCAGCTCTGCCCAGGAGAGCAAACCTTTGTGCCCACCGGGATGGCGCCGTGCCAGGCTTCAGTCAAGGTCAGAGTTTGCTGAGAGAGGCAGGCCGCCGAATTCTGGGAAGTTTTGAAAGCTAACCTAATTCCGACTTAAAGTATTGTATTTATTAATTAATTTCCTGCTTTGCAGGAAGTCTGAGGTTGTTTCCAATGAATGTAGGGTTTCACAGAATGAGGCAAAAAGGTTGTAGGAACTGGGGAGTCCCTGGCTTGTGGAGGAGAGTGTGGCTGCTCCTGTAGGGTCCCTTGCGCCCTCCCGGGGCCTCTCCACCAGTTGTCCAAAATGAGCACTTCCATAAATCAGTCTTTCATCAGGAAGTTGTTTCTTGGGAGAGCTCTGACCAGCTTCCAAGCAGTGACTCCATACACCAGACATCCATGTGGCAACAAGAACCAACGGCGTATGCAGATCCTTAGAAAATGGAACTTTGCCCTATGAACCTAAAAGGTTGAGTCTCCATTCACCCTCCGGGCAGAGTTAATTCAGTTCCTGTGTCGGAGAACCGCTTAACTTGAAAACCAGCAAACCTGACACATTTTCAACCAAAAAAAAATTGAGTGTTCAAAGAACAGAACAAATTTTGTCATCCTTACAATTGCACGGAGTGCAGCTAAAGAGGCTGTTGTTTGCTTTGTCTTGATGCTAACCCAGATGTGCCATCCGCCAGCCTCCGCGATTTAAATTACTCGGTGTTACTTAACAGATTTCTGAGCGGCTCTGTCTGATTTCTGCAG
Seq C2 exon
GAGCCTTGGACAGCATCACCAAGTATTTCCAGATGTCCCTGGAGGCAGAGGAAAGGGTCAATGCTTCCACTGTCCACCCCGACAGCGCCGTGGAGCTGTCAGCGCAGACACGGCAGGAAGTGGAAGACTTAATCAATGAGAAGGAGGCCCAGTTCAAGGCTAAGCAAGAGGAGCAGTCGCGCCTCCTGGATGAACTCGCTGGCAAGCTGCAGAGCCTGGATCTCGCCGAAGCATCAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF150111=CK2S=FE(38.8=100)
A:
NA
C2:
PF150111=CK2S=PD(28.8=56.8)
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:
GCTGACAGCTGATGTTACCGT
R:
TGCTCCTCTTGCTTAGCCTTG
Band lengths:
357-1542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]