GgaINT0098651 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106340634-106344231:+
Coord C1 exon
chr2:106340634-106340838
Coord A exon
chr2:106340839-106344086
Coord C2 exon
chr2:106344087-106344231
Length
3248 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGTTTCTTTGTTTGATAAAGATG
3' ss Score
4.81
Exon sequences
Seq C1 exon
TATGCAACTGTGGGCAGCGTCTTTGTGATGACTTAACTGGCAAATGCATTTGCCCTCCTCGAACTGTGAAACCAAAATGTGAAGTGTGTGAGAGATATTACTTCAGTTATCACCCTCTTGCTGGCTGTGAGAGCTGCAATTGTTCAGAAAGAGGAGTTGTTAATGCAGCAAGACCAGAATGTGAAAAAAACAACGGGCAGTGCAA
Seq A exon
GTAAGTTTGGATTATGTGCATTATACACAATGTATGAGTAGTTTGCTTCACTCTTCTTTTTGGGTGTTTGGAGAATATGAGAGGATACAGGGAACTTTTACAATGATAAGCAGAGATATAAGTGGTGTTTGACAGTAGGTAGAAGTCAGCTGTTACAGGGATACATGCATTGCTTTATGGAAATCTGGTTTGTGCAAGTAACTGATGGTGGCATTTGAGATACACAGGCATGCATTTTGTTTGCTGGGGATGTGTCATGTAAGCTTATTCAATGCACGGATAGCAGTTCACCACAGACTGAAACTCTGACATATTCATTGTTTGTAATGGTGTATGTTATCTCCCATGTTCTTAAAAACTTTGCGTCTGACACATTCCACAGTCTGAAGTGTGGGTTTAAATCCAGTAATGTTTTTAAGGACTGTAAAACTTAAGTGTTTGCAATGAATTTTTATGAACTTAAAATAGATGTTGTGTGTATGGAAAGTATCATACATTTGGACTTGCTCTATTATGCCCTCTGCCCTCTATCTGATATGATTATTTTTATGTATCTTGGTATACTGAGGTAAAAATACCTTCCTCTATGTATTCTGTTGTTTATATTGTCTAAAATATGTAGAGCATGCAGCCATAATTGTAGGGAAGCGTGTTAAATTCAGATCCCGTCAGTATTAGTGTAGTTGAACATTTCTGTTTATTTCCTTGGGGAGATAAACAGCAAGTACACATATGTGAGAGCCAATAGGCTGCATAAGGCCGAGTTTGATTCAGTTTGATTGGATTGGATATGCTTTTGCGGAGTCCTAATGAAGAAATATAGTCTTTCCTACTCTGCCATTAGTCCCTTGTACATGACAGAGAATACTCATTTTCAGAGTTCATATTTGAGTTTTATATTATTTCCAGAACTTGAACTATTGTCTCATGTCTGTTGCTTATGCATGAACTGAATAATTGTTTTATCCCAATGACTAAACAGGGTACTATTTTCATAGATAGAAATCAAGATTCAGGATTGGAGTGTAACATATCTGGAACAGGTTGCCCAGGGAGGTGGTGGAGTCACTGTCCCTGGCAGTGTTTATGGAATAGAGGTGATGTAGTACTTAGGGACAGGGTTTAGGGGGTAATATTGCTGGTAAGTGAACAGTTGGACTAGATCATCTTAGAGGCCTTTTCCAACCTTTATTATTCTTTTACATTCTGCACCTACTGATGCACTTTAATCTGATGGGTCTCTGCTTTCATCTCCCCACATATCTTATTGTTACATAGGCAACCAAAGCTGTACAAAAATAGATCGAATAATTCAGTCAAATAAAATCTAATACTTCAAAAGTAGGGCTTAGCACATTTCTGCCTGAGTAAAATTGAGGATAATTTCTGCAGAAGTAGATTTTCTCTCAGTGAAAAGCTGTATTGCCTGATGGTAATTGTGATATCTCTAACATGCAGCCTAACTAGTGACATAAATGAGATGACAACTTACTGGTTAAAATATATTCTGAAGCAAAATCTGACATTTGGCAAATATTTTTTAACTGATTTGGAAGTATAAAGCCGGCTACTGCATTCTGATTAATACTTTTCCTTCTGTGGATTACATGAAGTTCAAAGTCCCCACCTAACTCCTTTTTATTTGTGTGTAGGGAATATTGCATGCAGAGAGACTCTGAGAAACCTCATCCATTGTTTGGTGAACTGAGTAATTGTCTTTGTATTTTACGTGAAGTGCAGTCTACCTTGTCCACACACTTAACTGTTTCTTTCCATGTGTTTGTAGTGTTAGTGCATGTATAAATTTGGTGCTCAGAGCCAAAGGAGACTTCATCAAATTTCTGATTGTTATAAGAATGATGTTGTTACAACCAAAACATAAAGATGTTGATAGTGGTGATGGCAGACATTCTTTATAAGTAGGAATTTACTATCTTGAAACCTTTGGGCTAGTAAAGGCAGATTACAGGAATAGGCTAGTTAGTATAAACTGAAGGAAGAAAGACCATCAGACATTCAATTTCATCTGTCTTATCAGTCTGTAAAAGTTTGTTCCAAAGGCAGGAGGAAGGTGCTCCTGCCACAGAAAGATATTTTAGGTTGTCTCAAGCCTTGTTTTCATAATTTGGTGTCTTTTGTATCACCTATACTTCACTCAAGTAAATCCTTGAAAAGTGGGCCCACGAGAACATAATGAAGTTCAGTAAGGCCAAGTGCAAAGTGTTGGACTTAGGTCAGGTCAATCCTAGGTACAAGTACAGGCTAGGAGATGAACTCTCCTTGAGGGCAACCCTATGGATAAGGACTTGGGCGTCCTAGTGAAGGAAAAGCTGCAGATAAGCCAGCAGTGTGCTCTGGCACCTTGGAAGGCCAACAGTATCTGGGGCTGCATCAAAAGAGGGGTGGCCAGCAGGGAGAGATGATTGTCCCCCTCTACTTGGCGGTTGTAAGACCCCATCTGGAGCACTGTGTCCCAGCCTGGGGCCCCCAGGAGATAGTAATAGGACAAGGGGGAGTGGATTAGGTTAGATGTTTGAAAGAAATTCTTTGCTTAGAGAGTAGAGAAGCACTGGAGCAGGCTTCCCAGAGAAGCTGTGGGTGCCCTATCCCTGCAGGCATTCAAGGCCAGGCTTGATGGCTTTCTGGGTAGGTGGGAATTAGATGATCTTTGAAGTCCCTTCCAACTCAAGCTATTCTATGACTCAGTGAAATCCAAGAGGTTCAGCCATTACTGTATCCCTTGTGAACAGCTGCAAACTAACACAGGACTTGTGTTAAGTTGAAGTCTCCGTAATTATTCATAAGCCTGGGATTCTCCACATTTTTGTTAGCAAGTGAGCGCCTTGGGAAATGCCCAGTCACATCCTTCAGCTATAAATCTCCCAAGTTCTCTTACCTGTATACAATATTTGTGTTTCACTCTTTGGTGTATAGAGTAGTTCTGTGTTGCAAGCACTGATTTGCTGCAGAATTATAATTCCATTGTGAGCTTTTATATCTTTCACAATCAAATCCCTGCATAATTTCCATGACCACTATAAAATGTTACAGTTCTTCTCACCATTCGACTCTGAGAGCAGTACTGATCTGCTGCTATTCCTTCGTGAAACTCATAAAGCTTTTTCATAGCCATGCAATTGCATCAAAAAGCCACCAGCCTTTTGTTTTAATCTTCCCTTCCTCCATCTCACTCTCTGTTCCTGCCTTTCTTGTTGATTCCCTCCTGCATGTTTCTTTGTTTGATAAAG
Seq C2 exon
ATGCAAACCAGGAATAAGAGGACGACAGTGTGATCGGTGTGCTCCAGGTACTTATGATTTCCCGAACTGCATACCATGTAAATGTAACAGAGATGGAACTGAACCAGATGTTTGTGATCCTCAGACAGGAATTTGTCTCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:32
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=PD(6.1=4.3),PF0005319=Laminin_EGF=PU(46.9=33.3)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(51.0=51.0),PF0005319=Laminin_EGF=PU(44.9=44.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]