GgaINT0098650 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106339543-106340838:+
Coord C1 exon
chr2:106339543-106339754
Coord A exon
chr2:106339755-106340633
Coord C2 exon
chr2:106340634-106340838
Length
879 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
GAATGTTTTCTTTGACATAGTAT
3' ss Score
4.43
Exon sequences
Seq C1 exon
CCCAGAAAGATCGTCAGCCTTTTGTAAGGATTCTGCAAGATCACTTGTGGCTTTCTACAACAATGGAGCAGTGCCATGTAATTGCCATAGTGAAGGTTCCATGAGCCCCACTTGCAGCCCTCTGGGAGGACAGTGTATTTGCAGACCTAATGTCATCGGGCGTCAGTGCAGCAGATGCCAAACTGGCTACTATGGATTTCCATCCTGCAAGT
Seq A exon
GTAAGTACATGCTCTGGCTTATTCAGTACCTGAGAAGACCTTAGTTATTTAATTCTCTCATTTCATTGTATAGGCACCTTAGCTTCACTATTTTTTACAAGGCTTGATCCTGGTTCAGGATCAAGCCCTGTAAAAATGGCTGATTGAGCCATCTTAGATTTAGCATAGCTTTCAGTTTAATGCAGAAGTAAACTCATTCCCTTTAAGTGCACCCAGTTCACAGTGAGATGTGTCTTCATGTGAATTATCTGATAAGGGCTTATAGTTTTACTGGTTAAAATCCATATTGTGGATTATTAAAATCCAATCTTCAGTTAGATGGATTTTTCTGGACTGACTGCTTAGTAATTGCTGTGTTAACACTACTCAATTTATACCTTCAAGATTTTCCATAGATAATCAAGGACACATAGCGTTCTTAATTCGTCTCATTCTGATATTGTTCTTAATATCATCAACGAATCTGTAGACCATGCCACTAGTGCTCATCTGCCTTCCATGTATTATTCTCTCTTTGTTAATGTTGCTTTGTAGAAGTGATCATCTTGAAACCAAAACTATTAATTGTTTAATACTTGACCGTTTGGGGAAGTTTAAATTCAAGCAACCAATCCGTGGAAAAGAGCCAAGGTCTCAAGCTACTCTTTGGAACTACAGTTACAGTCACATAATCATGTTCTGTGGCTTTGGCTGATCTCACTCTCATATCATCATAATAGCTGGAGTTAAACAAGCCATCTAAAGTTTGAAAATCATGAAAGAGAGAAAAGAATAAATTGTTTGTTTGTAGTGTTTGTTTGTTTTGTATTAAGATTTTATAAGAATTGATCATTGTAAATTGAGATGCGATTGATTTGTAGAATGTTTTCTTTGACATAG
Seq C2 exon
TATGCAACTGTGGGCAGCGTCTTTGTGATGACTTAACTGGCAAATGCATTTGCCCTCCTCGAACTGTGAAACCAAAATGTGAAGTGTGTGAGAGATATTACTTCAGTTATCACCCTCTTGCTGGCTGTGAGAGCTGCAATTGTTCAGAAAGAGGAGTTGTTAATGCAGCAAGACCAGAATGTGAAAAAAACAACGGGCAGTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:31
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(91.8=62.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.1=4.3),PF0005319=Laminin_EGF=PU(46.9=33.3)
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:
TCTACAACAATGGAGCAGTGCC
R:
TCACATTCTGGTCTTGCTGCA
Band lengths:
343-1222
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]