GgaINT0112343 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14681577-14682786:-
Coord C1 exon
chr1:14682627-14682786
Coord A exon
chr1:14681714-14682626
Coord C2 exon
chr1:14681577-14681713
Length
913 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCCTCTTCCTTTGCTGACAGAAT
3' ss Score
8.42
Exon sequences
Seq C1 exon
GTCCTCGACACCGAGCTGAACAGCAAGTACAAAACCGTGGAGGATCTCATCACCAAAAAGACAGAGGAGTCTGCTGATGCGAGGAGGAAAGCAGGCTTGTTGCAAGAGGAAGCAAAGGCATTGCTGGCTCAAGCCAACAGCAAGCTGCAGCTGCTCAAAG
Seq A exon
GTAAGGCTGCTCTGAGGAGGCAAGGTACTGCTGTAGAATACAAAGTGCTATCGTGCTGTTAAACCAAGGTGTTCATCAGCAGCAGGAAAAGAAAAAAAGAAAGGTAATTCTTTGGTGCTGAAGTTTGAACTGCTTTTCTTATTCTTACGGACACAGCATAATCATGAATCAAAGGTTTGTATCAAAGAGAGCAAAAACCTGCAGAGAGACACAAACTTCTGGTATGGCACCTATCACTGCCCAGAGAATCACTACACAGAAGAATTAGACAGAACATAAGTAACCACGAGTAGGATGAGGACAAACTCATTCAGCAACACCAAAAGCAGTCAAACTCCTGACAGACAACCCAGAACACCATCTTCAAACAGTGTTCCCCCACACACCCCCGGGACTGCAGTTAAATCAAAGGGTAATGAGGATACAGCAGTTCCAGCTTACAGATGAATCTAACACAATGGCCAGTTAAAGCCAATTGAAACAGGAGGGGGCAGTCAGCCCATAACTGCCAGGGAGGAAGCAAGGTTTTCCTTCTGTTTTTGCCAGGCCAGGAACCAGTGCTTCCCTTCACTTGTTCCTGCACAGTTACAATGACTCACTGAATATTTGGACTGTAACAAGCCAACACTTCTCACATCAACAGAAGAGCCTCCTAACTGTAGGGAATGGCAGTTACTGTCAACATGAATCAAAGCACACTTTTTGCACTTACAGAAAATTACTTTTGTTGCTTTATGTCCCAGTTCTAGAGAAACAAAAGGAGCCATTTCAGCCTTTGCTACTACAGGTCACTTTTTCTTCCATAAGAAAATAAATCTGAATGGTAGTTTTTTTCTGTAACAATTATGATTGATATTTTTACCACATTAAAACATACCTAATTAAGCTGTTTTTCCTCTTCCTTTGCTGACAG
Seq C2 exon
AATTGGAAAATACGTATGAAAACAATCAGAAAGTTCTGGAAGACAAAGCCAAGCAGCTGGTGGAGCTGGAAGAGACCGTGCGCTCCCTCTTACAGACAATCAGCCAGAAAGTTGCTGTGTACAGCACCTGCTTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.000
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGACACCGAGCTGAACAGC
R:
TGTACACAGCAACTTTCTGGCT
Band lengths:
279-1192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]