GgaINT0112335 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14690275-14692404:-
Coord C1 exon
chr1:14692035-14692404
Coord A exon
chr1:14690460-14692034
Coord C2 exon
chr1:14690275-14690459
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:ENSGALT00000012832:18
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),PF150111=CK2S=PU(31.9=41.1)
A:
NA
C2:
PF150111=CK2S=FE(38.8=100)
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]