GgaINT0112335 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15868494-15870623:-
Coord C1 exon
chr1:15870254-15870623
Coord A exon
chr1:15868679-15870253
Coord C2 exon
chr1:15868494-15868678
Length
1575 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GCTGCTCCTCTGTTCTGCAGCAA
3' ss Score
7.55
Exon sequences
Seq C1 exon
CGTGCGACTGCAACCCCCGTGGCATCCAGACCCCGCAGTGCGACCGTGCCACAGGGCAGTGCATCTGCAACGAGGGGGTGGAAGGGCCGCGCTGCGACAAGTGCTCGCGGGGCTACTCGGGCTTCTTCCCCGACTGCGTGCCCTGCCACCAGTGCTTCGCCCTCTGGGATGTCATCGTCGGCGAGCTGACCAACCGCACCCAGCAGTTCCTGGATAGGGCAAACGCCCTGAAAATCACGGGGGTCGTCGGCCCCTACCAGCAGACGCTCAGCACCCTGGAGGAGAAGCTGGGGGAAATCAAAGCCATCATCGCTCAAAACCCAGCCGCCGAGCCACTGAAGAACATTGGGAATCTCTTCGAGGAAGCAGA
Seq A exon
GTGAGTACGGTTGCAGTTAGGTGGGATAGGTAGGATAAAGCCAGCTTGGGGAGGAGTGGGAACGCTGCTGGGCTGGGGCTGAGGGCGCAGGTGGAGGCCGCACGCTGGGTTAGAGGGCACCCCGACAGGGCACGGCATGGCCCTGCTGGAGCATCTCAGCGTGCTACCAAGCCCCCATCCCATGAGCAGAAACCGGGCCGGGGAGGCAGGAGCAGCACAGACTGCACTGGGCAGCTAATTACCAGCTGCTAATTAGCACCGAGCTGCTCACGCTTGCTTTGCACTCCCCTCGGGGCAAAGGACAACCACTGCTATTGTGTGAGAGAATGAAGAGGGGAGAGATTAAATTCCTGGATTTCCGCCTGCAGCCGATGGGTTGGAAACTTCGGGCTTCTTTCTGCACTCAGAGCTTGAGGTGGGGGGAGCAGCTGCTCGGTCACAGCACTTGTTTCCATTCTGCTCAGGGTCAGAGCCTGTATTTTGCTTTAGAGCTGAGCATACTGAAGAAGGGGGTTGTGCTCTCACAGATGGGGCAGTTGTGCAACTGCTAGAGCTTTGTTTGTGCATTGTCAGGGGACTGCACAAAGCAAGTGGGAGAGGATCAAAGCACAAATGTCTCAATTAGGGACTGGCTTGTGCCCCGCAACCCCCTCTTCAGCTGGAGAGCCCCACAGGGCTGCTGCTGCTGTGTTTGGGCTCTGTGTGCTGAGGGAGCACCTGTGGAGCTGCTGTTCTCTAACCAGTGTAGTAGAGCTCCTCTCTGGCTGTACAGAGAAGGAAGTATTGGATTTTGAAGAGCTGCTGGCAAACAGCAGCCTGCTAAGCTGTTGGGGGGGATGGAAACTGATCACGGAGATTAAATACTGCCCAGTTCTCTCAGCATGAGGAATTGCCGGGTGTGGTGGGATCGCCATGGATGGGAACAGTTTCCTGTGCCCAGCTCCGTTCTGTAGCAGCTCTGCCTTGTATCCTGCGGTTGTCTTTCCTTTTAGGGTTATCCCAGCAGCTGAAGCTTTCTCCTGCGTGCACTAAGGCCATGCAGGAGGTTCTCCTTAGCCCCAGAGAATGGCTGATGGGAAGGGATCTTTACAGAGGAGCTAAAAGAATCCATTGTATTAAAACCAAGCCATCTAACTGTTTCCTTCCCCCCCCTTCCTGAAGTTCAGATCTGTCCCATGAGTTCATAATAATCCAAACTGCATTTTTAGCTGTGTGGGGGGGGGTGAAGCAAATTATGTATGGATCATAGTAGTCAACTCTGACCTATGCAGTTGCCATGGTACAAGAGCATTACACCAGTCCTCTGGAATCTGGCTCCAGTTAATCTTACACAAAGCAGCTGTTTTCTGAGCAATTTGGTGCTTTGAGTTTATAAACGTGCTGTAGATTAAAAAGTAGTTTTGTGTGATAAAGGAAACAAAGCAGCATTCTAGGTAGGCATGCTGTTACAAATCACGGCTCTGCCGAGGGAGGCCGGGCCCTGCCGTGGGAGCAGCACGGCATGGTTCTAACCATTGCTGAGCTGAACTGAGCCCTTCCTCTGCCCCCATTAAGTGCTGCTCCTCTGTTCTGCAG
Seq C2 exon
CAAGCTGACAGCTGATGTTACCGTTAAGATAGCGGACATAGAAGCAAGCCTCTCAACCTTAGCAGAGAAGAGCAATAGCACCGATGCTGACCTGAGCGCGTTGGAGACAGATGCCAAAAGCCTGGATCGTGTTGTGAAGGAGCTGGCAGAACAGCTCGAGTTCATCAAGATCTCTGATGTTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:23
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=0.095
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=41.1)
A:
NA
C2:
NO
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:
CCTCTGGGATGTCATCGTCGG
R:
CTTCACAACACGATCCAGGCT
Band lengths:
349-1924
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]