GgaINT0112340 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15863129-15863682:-
Coord C1 exon
chr1:15863475-15863682
Coord A exon
chr1:15863271-15863474
Coord C2 exon
chr1:15863129-15863270
Length
204 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
AACCTAGTTTTGCTCCACAGCAA
3' ss Score
5.26
Exon sequences
Seq C1 exon
AAGACAGCGCTGACCTGGACAGCATTGAGGCAGTGGCTAATGAAGTGCTGAACATGGAGATGCCCAGCACCCCCGAGCAGCTGCAAGCCCTGACAGAAGACATCCGTGAACGCGTGGAAAGCCTTTCTGATGTCGAGGTCATTCTGCAGCAGAGTGCTGGAGACATTGCCAGAGCAGAAATGCTACTGGAGGAAGCTAAGAAAGCAAG
Seq A exon
GTATGCAACCTCATTTTGTATTAGGTATTTACAGTCACTGAGAACTGGAATGAGACTTCCATTTCACTCTACCAGGGAACGCAGTTTACCTTACCACAAAGCAGATACCCCTTTCCTTCACTATCAGGCAAAAATAGCCCTTTGCAGTGTATGACCATTGCAAAGTAAAAGCACTTTTATTGCTAACCTAGTTTTGCTCCACAG
Seq C2 exon
CAAAGGTGCAAAAGACGTTAAAGTCACTGCAGACATGGTGAAAGCAGCACTAGAAGAAGCTGAAAAGGCTCAAGATGCAGCTGAAAAAGCCATAAAACAAGCTGATGAAGATATTAAAGGAACTCAAGACCTGCTGACCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.500
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCTGAACATGGAGATGCC
R:
TGAGGTCAGCAGGTCTTGAGT
Band lengths:
307-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]