GgaINT0098636 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106320704-106322844:+
Coord C1 exon
chr2:106320704-106320809
Coord A exon
chr2:106320810-106322744
Coord C2 exon
chr2:106322745-106322844
Length
1935 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TTCTGTTCTTTACCTGGCAGGCT
3' ss Score
8.22
Exon sequences
Seq C1 exon
GAAACTGGACGTTGCTATTGCAAATCTAATGTGTGTGGAGATTTCTGTAACACCTGTGAAGCTGGTTATTATGCTCTTGAAAACAAAAATTATTTTGGCTGCAAAG
Seq A exon
GTAAAGAATGTTTCTAGTAGCACATTTGCATTTAACACAGAAGTGTTTAACATTCCATAGGTTATTTTTTCAAATGTGGATGTATTTACTGAGTCACTTTTGCACTGTATTTTGCACTATTGCTTATAACAGAAGTGCAAGTCTCAGTTTGAACTGAATGCAATTTGCACGTGAAAATTCTCCTTCTTTGTCTTCCAAAAGGAAAAAGAAAGGCAGATGTTACCACTGTAGTTCCCAGAAGTTTGGTGACTCTCAAACTTGAGAAAATTTGTTTCACTTTGACTTCATCATCTTTTGCCTCTCCATCCCCAGTACCTTGTTTACCAACACCTGTCTGAGCATTTGTTCTCGCAGCCCTTTGTGTGATTCCATGAGGAGCTACTGAAGGTTGCCTAGCACAGAATCAGTGTAAGCCTGGGCAATCCTACACTCTGTGCCTGGCATTCATTCCTGCATGTGTGCTTGAGCCTCATTTATGAAGTTCATCTCATTAATCCATTTTGAAGTCTAATATCTCCCACTCTGAGAGGGTTTCAGTGAAGTCAGGAGTTAAAATGCAGTACAAAGTATAGTGAGATAGATAACACCTTACAAAATACTTCACCCTAGCAAAATATGTAAGTGTCATAGATAAAAGATTCCGAGATAAGGTAATTGAAGGTCATTCCTTCTCTTACTCCTATCTGAACCTAGGTCAAGGGATGTTTGATTTTCCTGTAGGCGTTATTTGTAAGAGTGGTAGCTCTCTGTTCTGGTTAGCACTTTTCTGAAATCTTCTGTTGGATTAAGAATTTAACCTGATTTTTTTTTTCATTTTTTCTGATATGTTTGTGTATTGCTTTAGGCTGAGGCTCAATATGTTTTGAAGCACAGCATAGCAGTGATATAAAGGAAGTAGTCATTCTCCTGGAGGATACTCACTCTGCCATTTGTCTTTAGGGCTATAGGTCTACATCAGTGGATCCTATCCTTCCTTGCCCCACCTGGTAGATTTGGATTTGTTCAGTTTATTGAAAACACTTTCACTGTCTTCAGTGGGCTTTACACCTGTCCAAGGATGATGCAAGGGATTTATTTTTAAAGTACTAATGTACTTTTAGCAATCATTTTATATGTGCAAAGTAAAACAAACAAACAAAAACAAACAAACAAACCAAAAAAAAAGACAGATCTATCAAAGAAATCTTCCATGCTTAATTTTCAAACTGAAGATCTAATGGAAGGGATCCGTCTTCACAAAGTTGAGGAGAACTTTAATTCTCCTTGATTTCATTGAGATTACAGATGCTCGACATTCTGTAAATACGTTTAGGAACTCTCAACCTTTTAAGTCAGTTTTGAAATGTTTAGCCTACATACTTGTTCCTTAGTATGATGTACTATGCCTCTTTATTACAAGTGTCCTTTACTTATTGCCAGGAGTTTTGTCTCCTGTATCAAGTCATTCAGTGCTTTTCAGTATTGGTTAAAAATATGTATATGCATATATGATTTTGTTATGTGGTGGTACTAGACTCTGAAAAAGGAACTTCTTTCTCCTTTTGTAAGTTAGATGTTCTTTTAAATAATCAAACCTAAAACCCTGATATTAATGTAGAAATTCTTGCTTGTTAGCAAAATATTTGAATGGCTGTTTTACAGAACTGTGGTTCAGCATTTAATAAATGTGGCTTTTTATTTATGATTTAAAAATAAAATAGTGGTCTAATGTTACAAGCAGAAAAAAAAGTAAACAACATTAAGCATGAGGAGCCAGAAATAACTGCATTTTTTGTGTGGGTGTTAAAGTATTTGATTTGAGGGGCATCTAAAGGGCTCCGGAAGGAGGAAATGAGTTGATAATAGTGTTTAATTAGAGGAAGTGAGGTGTGTTTTCTGGTAAGTTTTACCATTTTTTTCTGATAAGATATTTGGCTTCTGTTCTTTACCTGGCAG
Seq C2 exon
GCTGTCAGTGTGATGTTGGAGGATCCATCAGTTTTGCGTGTGCTGAACCCTCGGGTGCCTGCCAGTGCAGAGAGCATGTTGTGGGGAAGGCCTGTCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:17
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(64.7=91.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(69.6=94.1)
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:
GAAACTGGACGTTGCTATTGC
R:
TCCTGACAGGCCTTCCCC
Band lengths:
206-2141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]