GgaINT0112336 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15867067-15868678:-
Coord C1 exon
chr1:15868494-15868678
Coord A exon
chr1:15867309-15868493
Coord C2 exon
chr1:15867067-15867308
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:ENSGALT00000012832:24
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=0.346
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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]