GgaINT0112322 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14711041-14712140:-
Coord C1 exon
chr1:14712028-14712140
Coord A exon
chr1:14711121-14712027
Coord C2 exon
chr1:14711041-14711120
Length
907 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AGCGATATCTCCTCCCACAGCCT
3' ss Score
6.14
Exon sequences
Seq C1 exon
CTTGTGCATGTAATCCTTTGGGTACCCATCCCGGAGGGAATCCTTGTGATTCAGAGACAGGAAACTGTTATTGTAAGCGCCTGGTGACAGGAAAGCAGTGCAATCAGTGCCTG
Seq A exon
GTAAGTAGATTACTGTAACAATAATGAGGAGACACTGGTGTGAGGGATGCTAGCAAGCAGGCGCCTGGCGTGTGGGCTGGGTGGGCGCCTCAAGGTGTTGAGAGCCATGGAGCTATGTTACGGGCAGGGAGACGTGTGCTGGGGGTGAGTTGAGGCAGGTGAGAACATCTGGAAATTAAGTCCTGTTACTTCAGTGTGTCCAAAGAGTAAGATGTTAGGGTAACTATTGTGGTTGCTCTGTGAAAATGCGGGTCTGGGGCAGTTCTGCCTGAGCCCTTGTTGGGGTGAAAGGTAAAATGGACTGAGAAGCAAAAGATAAGATTTTCTATACTGGCCATTTCTTAGACAGGGATTAATTGCTACACATACATTTCCATACAATGTTTGTGTGTGCTGGAGTGTTATAAAAACACGCTGTCAAATAAAGGGATATGTTTGTATAAACACTGACAGGCTCTCTTATCTGACAGTAAACTATGGAAAAGCTAAACAAGGCTGTCTGTCTTTCTTTCCGCTGAGCAAGCCGTAGGGAACAGCCCTACATGGGCATAGCCCGGCACAGAGCCCTGCTGGCCCATGTGCTGCTCTCTGCTTGGGTACAGTGAGCTGGGCTGCAGTTCCGAAGCCCTTTGTGGGTTGGCAGCCTGCATCCAAACTGGTTTAAATGGTGCAGTAGGAGTGAAGCAAAGGAGATGGAGTCCTTTGGAAGTTATTTTTTAAAGCTTGGTGGAAAAGGGTTTTATTTCTCAAGCCCCTGGGCCAATTGGAAGAATGGAGGAGAGCAGATGGAAGGGTTTTGTTGATGGATGTGGCTTTTCAAGGGGCCAGCCAAGGGTGGCTCATGTTGTGCACCGCAGATGTGCTTGTGGGGTGGATGTGGTTACATCAGCGATATCTCCTCCCACAG
Seq C2 exon
CCTGAGCACTGGGGCCTGAGCAATGACATGGATGGTTGTCGACCCTGTGACTGCGACCAGGGAGGAGCGCTACATAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:5
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(23.9=40.7)
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:
TGTGCATGTAATCCTTTGGGT
R:
TGTTATGTAGCGCTCCTCCCT
Band lengths:
190-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]