GgaINT0098622 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106290273-106291408:+
Coord C1 exon
chr2:106290273-106290390
Coord A exon
chr2:106290391-106291289
Coord C2 exon
chr2:106291290-106291408
Length
899 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
AATAACTCTGATTTGACCAGACT
3' ss Score
3.13
Exon sequences
Seq C1 exon
CTCTTCCATGTTGCCTATATTCTTATCAAGTTTGCAAATTCCCCTCGTCCAGATCTCTGGATCTTAGAAAGATCAGTGGACTTTGGAAGAACTTACACTCCCTGGCAGTATTTTGCTC
Seq A exon
GTAAGTATAAATTCTTGCATTGCTGCTTTTTTGTAGGCAGGTTTCTTTAATCATTTGCCCAGTAGCAGGAAAATCAGGTCATGTATTTTGCTGAATGTTTCAGCTATAGTGGAGGCAGCTGATGTCAAAAATGTTTATCTTGGTTATAGATGATAGATGAGTCACAAGAGTGTAATTAAAATTGAGCATAATATTTTAAAACTGTAACTCAACATGTCAGTGTTTGTCAGTCTGTTGGGATTTTTTGTTTTGCACTGCTTATCTTGCCCTTTAGTGTATCAGAGCTGCAGTGTCCTTCATCCCACTGGACTAAAGAATTCCTTGCAAAAATCAAAGGGACATGGTTTAGTGGGCATTGTGACAATGGATTGATGGCTGGAGTAGATTTTAGTGGTCTTTTCCAACCTTTATGATTCTGTGATACATGAGCATGAAATCTTGGAGTAGATAAACTTTTCTGTGATTATATTAGAAAGATTGTGCAGTGTCCTGTCAAGAACCACTGAATGGCTTACTACGAGAAAAGTTTTATCATAGAATCATAGAATGGTTTGGGTTGGAAGGGACCTTTAAGATCACCTAGCTCCAACCCCTCTGCTATAGACAGGGACACCTCCCTCTAGACCAGGTTTCTCAAAGCCCCATCCAGCCTGGCCTGGAGTGCTTCCAGGGAGGGGGCATCCACAACCTCACTGGGCAACCTGTTCCAGAGTCTCATCACCCTCACATTTTATATTTAGGAATTTTCATTTTTTATGCGCTAAGTGAAGAAATCAGTCTTTGTTTCTCTTTAATTAGGGGAAGAAATTCTCTGTGCTTTCACATAAAATTTCTTTGTTAATTCAAATTAGAACAATAGTGTATATTTTCATATATAAAAATAACTCTGATTTGACCAG
Seq C2 exon
ACTCCAAAGCAGATTGTTTGGAACGCTTTGGAAAGGAAGCAAATGTTCCCGTGAGGAGGGATAGCGATGTCATTTGCACTACAGAGTATTCTCGCATTGTGCCTCTTGAAAATGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:3
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:
PF0005512=Laminin_N=FE(15.7=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGTTGCCTATATTCTTATCAAGT
R:
TCCCCATTTTCAAGAGGCACA
Band lengths:
231-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]