GgaINT0112342 @ galGal4
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr1:14682627-14684129:-
Coord C1 exon
chr1:14683953-14684129
Coord A exon
chr1:14682787-14683952
Coord C2 exon
chr1:14682627-14682786
Length
1166 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTTTCTATCTGGAACAACAGGTC
3' ss Score
3.67
Exon sequences
Seq C1 exon
ATTCAATCCGAAAATGCAGCATCTGAAGAAACACTGAACAATGCCACTTTACGTCTGTTTGCGCTTGAGAGGAGTGTTGAAGACCTTAAGCAAAAGGCTGCTACAAATTCAGAAAATGTGGGCAACATAGAAGAAAAAATCATTTCTGCAAAACAAAATGCTGAAGAAGTTAAACAG
Seq A exon
GTGAGAAGTTTGGGAAAGATACTAAAGGAGAGCCAACAAAACTCACCCTGGGGTTGGGTAGATGAACACTACTGGATTCCTTCAGTCCACTTAGTTTATTGGCTAAGTGCTGGTGACAAAAAACAGTGCCTAATGCACTTGCTGAAGTATTCTTTACTCAATCTGTTACTAAATGTAAAGAGAGAGAAGCATTAGGAAGTTGTCAGGTTCAAAAATAGTTGCAGGAAATATGCCTCACTGCCACACATCAGCCTTTCGCAGATTTGTTTCTGTCCCTCAGCTTCACTGTCTGCCACAGCTCAACTGGCAATTTTATTTTCCATCTGTATTTGTTTCTATAGTGATGTTCAGGCCAAACAAACCCTAGTTGGGCATATACAGAACCAAGTGGCAAGAATAAATCCTTAGCTCAGTATAAAACTAGTCTCATTTCTAAATATCAGAGATGCAGAATTCACTCCAACCATATGGCCTAATTCCCAGTGTCTGCTATACACCTTCGTAATACCAAAAGAATGTTCATTAACAAAACAATTGACAAATCTGCCAAAGGAAGTTTTCATTGCTCCAGTCTCTTGGCTGGAATTAGCCCATCGGTCTCAAGAGACGTTTTCTGCTAAGAGGGATGTATTATCCGTCAAACAATTATTTCCAAGCACTAAGTAGTATTTCAGGTGGTTATCAGATCCCAGAGGGTTCAAGTACTGCTGCAGACTGTTAACTTGCTTACTAGTTGAATTCATTTGTGCTGTAGCACTCCTTAACCTCACAGGGAAAAAGCACAGCTGAGAAGTGAACCTGATGTCTTCTCCAGCACCCTCACCTTCAAGAGCCATGCAGCTGTTCTTATGGAAAAGGCAGCAGTGTTGTTCCTCCCCCACTGCTCCGTTGTGTTAGGGGCTGTGACTTCCCAAGTTCCAGAATTGGGTAACTGCAGTCCATGCTGAGTGTTAGAGCTGTAGGACAGCCACAGATGTGTAAGAGGGCACTGATGAATCTTCGCACCCACTCTTCAAATCTTGAATATGAAACAGGAAATCCCTCGACCCTGTTGTTGCTTTTGTTACCCGAGCTGACACTGTGCTCTCTTTAGCCCGGATATTGAGCAACTCCTCCTGCATTGTCTTTTGAGTGGCTCCATCTTGTGTTTCTATCTGGAACAACAG
Seq C2 exon
GTCCTCGACACCGAGCTGAACAGCAAGTACAAAACCGTGGAGGATCTCATCACCAAAAAGACAGAGGAGTCTGCTGATGCGAGGAGGAAAGCAGGCTTGTTGCAAGAGGAAGCAAAGGCATTGCTGGCTCAAGCCAACAGCAAGCTGCAGCTGCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.322 A=NA C2=0.148
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:
TTCAATCCGAAAATGCAGCATCTG
R:
CTGCAGCTTGCTGTTGGCTT
Band lengths:
326-1492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]