GgaINT0081937 @ galGal4
Intron Retention
Gene
ENSGALG00000015001 | LAMA4
Description
laminin, alpha 4 [Source:HGNC Symbol;Acc:HGNC:6484]
Coordinates
chr3:65199672-65203583:+
Coord C1 exon
chr3:65199672-65199814
Coord A exon
chr3:65199815-65203447
Coord C2 exon
chr3:65203448-65203583
Length
3633 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
CTGACTTTGTTTTCCAACAGCAT
3' ss Score
9.59
Exon sequences
Seq C1 exon
ATTTCTATTATATATCATAATTCTAAGAAGATGATCTTGGTAGTAGACAGACGACATATAAAAAGCATTGACAATGAAAGAACAGCAATGCCATTCACAGACATCTACATTGGAGGAGCACCTGCGGAGGTCTTACAGTCCAG
Seq A exon
GTTGGTGTACAGCTGGGATTTAATCATTATTTAAGTTACGTTTGCTGAAAGGCTTACAATACATCACTGTTATTTCTCAGGAAGCGCTTCTTTAATGCGCAGGTGACTGAGCACTGGCACAGGTTGCCCAGGTCAGTTATGGAGTCTCCCTCCTTGAAAAGACTTCAAAGCCTCCTGGATATGGTCCTGTGGAAGCATCTCTAGGTGTCTGTGCTTGAGCAGGGGTTGGACCAGATGGCCTCCAGAGATCTCTTCTAATTTCACCCCTTGTGTGATTCTGTGTTTTTCCTAGCTTCAGCACCTTATGTGAAACAACTCTTATGACAAACTTTTAAGGTTTTTTTCAGAGTTCTACAGTACCAAAGATTAGGATGGATCCTGCACAGCTAAATTCTGCTCAAACTGGTCCTGTTTTAGTGAGGTTAACAGAAACTGTTATCTTCTTAAAACAAAAAGTCAATTCTAAGCATATGAATATGTAGAATCATTCTTCCTTCTCACTGTTCAAAAATATCTTTGTGAAATGAAAATGCATTAGTTGAAGGATAAAACCCTTCACCAACTGCATTTTCAAATCTAAAGATGATTTCTTTCCTACTGTGCATATCAGTTCTGTTGAATCTTATTTTCTCTTTAGATTCAAGTCAGCTGGTTCTGCGTGGGTGTGAGAAGAAAATAAAAGTCTCATTTTCCTATCATACCATTTGACAGAAGCCAAGCTTAATCCCAGTGAACCATAATAGTCCAATTTACTGTAATGGTAATCCACCAAGGCATTGTCACACTTTGGGAGATCGGGGCAGATGTTTGAAGAAGGGTGTGGCAGGAAACATGCGTTCCCTACAGCTCAGAGATTCAAAAGGGCTCTAGCTGCTAACTAAAGAGTCAGAACTGCTAACAGAAATACAGGTTCTCTTTAAAATAACCTTGATGCTTTTTTTTTTTTTAAAGAGAGGTTAGAGATAGTAAATGTTGGAGAATAATTACTAGCAATTACTGGTAAATCTCCTGAAACTTTGTTTCTAGGAGACCTTTTTGTTGGAATTGATAACTAATGAGATGTAATGACATACACTTACAGATAGGGACAAACCCCTGTAAAAGAAAATGATGCCTTTTGATCCCATGTAATTAATTGAACATGAAAATAAAATGGGGGATAAGGGAGAAGTAACCCATGCAGTAGTCATAGCTCTTCATAAATGTTTGTCATAAGGGCTACTGAAAAAAAACTGGTGGGTTGGAGGAAGGAAAGGCTGCACTGGATTATAAAATGCCTGGAAAAGGAAAATAGAACACAGTTGTAACTCCTCCATTTTCACACCATTTTCTACAGCACATGCCCAAAGTATCTCTCTTAGGGTCAATACTGAATACATTAATGATTTAGGGGAAAAAAAGGCAAAAGGATGGTGAAAAATACTTTCATTAGTCAAGCCTAGAGTACACTGAAAACATCAGAAGGATGCAGAAATCCATGCAGTTGAGTAGCCCCGTTACAAATTAAACTTGTTCACAAATGTAGGATACAAGATGAATCACATGAATTATGTCCATGGTTTTCCAAATGTATTGTGGTCATTCTACAAAACACCTGGGAGATAATGAAGAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAGAGAAAGAGAAAGAGAAAGAGAAAGAGAAAGAGAAAGAGAAAGAGAAAAAGAAAAAGAAAAAGAAAAGGAAAAAGAAGCACTTCAATGAACAAGTGGTATCAGAGAAAAATAACAACAGATGTTATAAAAATATGGTAAAAATATTATAAAAATTGGAAACGTATATTGAAATGATTTACACAGAGCTACAGCTTTGCTTTGTATATCATACCCACCTTTATTCTCAAGACAAGGCTAAACAGCAAAAAGTATGATTCAGATGTAGTGACAACTTTGTATTTCCAATGGATGCATAGTTTGCTATTAGAATTTTAACACTGAAGAAATGGAACTATCTGGCTAGCTACTACTGAGACGTATGTTTCCTTTTTTTAGGCAGATTCACATCTGACTGACATCGGGGTACAGCAGCAGGGCAAAACTAAGTGTAGTCTTAAAGGAGAAGTTTAATTTTTCTTCAAAGCAGTATATTTTCCTTCATTTCAACAACACTTTATTTTTCTCCCACTTCACTCACTTCATAAAGCAAATGGTTAAGTGGAGCTAGGAGTTCTGAGGGCTGGGAAATGTGAGAACAAATTCAGAAGACATTTTTATTTGTCTTTAACCTATTTTCTTCAGTTCTGTTTGCTTCTAGAAAATGTTATTAAGTTAATGGCCTGTTTGCAGTTTCTACGCGATCAGTCAGAGTAGAGGCTGAACTGACTGACTGACACACCACACTTTGATCCACGCACTGTGATCCAAATCCCAGTGAGAATGACTGGAGCCTTCCTGTTCATTTTGCCTCCCTGCTGATTTCACTGAGCAGCAGATTAAGCCCCTACATGCTCCCCCTCTCACCTTATTTCAGACATGTGCATTTGAACTATTCCATTTGATGGTCCATTTTAGCCAGTGTAGAAAAGCAAATATTTCCAGAGCTTGATTCATTTTTCATGTTTCCAGTGCCTACCTTACAATGAGGTAAAGCATAGAAAACTATCACAGAAGCAGATGTCAGCACTATCAGAATCATGTCATGTGAGATGAGAACCTGGCTACTAGAAAGTCTTGTGGAAAGCACAAAGACTGTCTACATGTTTGCCAAGTCAGAACTCTGAATTTCACATTCATTCCTTCAGTGTACTTTTTCCCTGATTATGTCCTAGACTGGTACCAAGTAAGCCCCATGTCATTTCCCTGCTCTGTCACCCTCTGCAGTTTCTGGCAAATTTCTTCTTCTTCATACAGCTTGAATATTGTGAGGATAAATTCAGTGACATTTGTCCTGTGCTGTAATGCTGTGATATCTTGGTGAGGAGTGGAGTAGAAAAACCTCGAGCAGTGAGCAGCAGCAGCTGGGATACAATGCTGTGCTATACACCTCAAATCTGGCACAGGAAGTATCCTGGAAGCCCACCCACTGCTCCAATTTAAAACTATGTAAACCTATTCACCAGCAATCAGTATTTACTCATACTTCCTTGACCTCTGTTATTAATTCTTGTTAAGAAATATAGATCCATTTGCTTCCCAGAATAAGAATAGAGCTTGCCAGTAAAAGCAAGAAAGGAAAATTAAAACAGAACTTTTCTAAAATGATAAATGAAGACATAAATCAATTTATTTTTACCATAAGTGGGTACAAATCCATTTAGAAATAAATCCTTTTGTTTCAGCAACCATTTTTGTCTTTTTAAGTTACTCTGTACGTGTCTTCTCTCTGAATTCTTATACACTTCTCCCTGTAACATTTATTACAGCTGGTGCATCTTGACTTTTCAGAACACCTAATGTGGTTAAATAGCTGTTTTACATAAAGATGTAGGAATTGGGCACAAGTGAGGCAAATGACTGAAGCTCCTCCAAGTTTTTTAGAACACCTTGGCACTAAGTGTATATTCTGGAAGGCAAAGGATATGTAATTGCACCTTGTCTGACTTTGTTTTCCAACAG
Seq C2 exon
CATTAGTTCACATCTGGCAGGAATTATTGGCTTTAAAGGCTGCATGAAGGGTTTTCAGTTCCAAAAGAAGGATTTCAACTTGCTGGAAGAACCAGGAACCCTGGGAATCAGCTATGGGTGCCCTGAGGATTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015001:ENSGALT00000024193:25
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:
PF0221019=Laminin_G_2=FE(35.9=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(17.6=50.0)
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]