RnoINT0083964 @ rn6
Intron Retention
Gene
ENSRNOG00000000599 | Lama4
Description
laminin subunit alpha 4 [Source:RGD Symbol;Acc:1560062]
Coordinates
chr20:44160240-44162709:+
Coord C1 exon
chr20:44160240-44160356
Coord A exon
chr20:44160357-44162529
Coord C2 exon
chr20:44162530-44162709
Length
2173 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TCCTTCTACTCTGTGTGCAGGGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GCAGTGACGAGGCCGTGGCTGACACCAGCAGGCGCGTGGGAGGAGCCCTGTGGAGGAAGGGCGCCCTCAGAGACAAACTGACCGAGGCTGTCAAGCAACTCCAGGCAGCAGAGAGAG
Seq A exon
GTAAGGATGCAGAACTTCAAGGCCCTGCGTGTTTGTCCACGCGTGTAAAACAACCTTGCAAGGGGGATTAAGTGACTCCTGAGTCATCAGCTCCTTTCTCATCTTCACGTATTTGTTCTCTCATAACAAAAAAAAAAAAAAAAAATTCATTACTCTCCCCAAGAACTACCCTTAGAAATAAAGCTGTGACCATATCACCCAGAGATGAGCATTAAACGAAGTGTTTCCTTCCTTCTATGCCCTGCGCTGCATGCGTATGTACGTATGTGTTTGAGTTGGATTGTGCTATTTGTGCTGCTTGGTTACCTCTCTCTCGTCAACATTACTCCTTGCTCGAAGAATGCCCTAATTTGGTCATTGGATATCTCTGGCCCCCACTATAAACAGCATCCTTCTGTTAGATGTCAAGTTGTTCTTATCAAATAAGCAAGGAGAGCAAGGCACCAAGTAGAGAAACAAGAGTGCGTCTGTCTCCTAATCTGGGACTCCAGTCAAGGTGTCTTGAAGGGCTGTGATTGGACGCAGATGTGCCTTCCTCGGTGCAGCAAAAGGCAAGGCACTGCTGCTGGATGTGGGTATTGTGCTGGCATGAGCGGGCCTTGGAACCCAGGAGCCCTGGCCAGGAGAATGTGAATGTGCTGAAAGACCTGATCAGAGCAGCTGATGACTGACTAGACTTTGCCGGGCTCTGTGCTGTGGAGGTCAGAGTCACCATTGACCTTCCAGCTGAAGAGAATCCTGAGGTTAGTCAGGGCTGGGAAACTTTCTCCAACGGGTGCAGCTGATAGGAGGGAGATCCAGGATTCAAACCAATGTCCAGCCAGATCCAGAGCACAGAAGATTAAACAAAGTGTTTCTTCACTTTAAAAACTTTAAGTTAAAATATCAACTAAGTATTTTTTTTTACAAAAGTAACATATTAGCCTTGTAGGGAAAAATGTGAAACCCATATTAGACGGGGGACAAAAGAGGAAAAATCATCTATAATCCCATTATCTAGAAAAAATTGTAATTGTAAACTTACATTATCTTTATTTTAAATGTACAGCTTCTATGTGTGTATAATGTGTGCCTGTGAGAGAGAGAGAGAAAGAGAAAGAGACAGACAGAGAGAGAAAAGAGAGAGTCAGGGGGGGGAGAGAGAGAGAGAGAGAGAGAGCGCACAAGCATATATCATATCATGGCTCCATTGTGCACTTTGAAAGTCAAAGAACAACCACAGGTTCTGACCTTCAAGGTCTGCACTTTTGGAAACAAGATCTCTAGTTCTTGGAACTCTCTGGTCTTGGAACTGGCCTTGATCCTCCTGTTTCTACCTCAAGACTGAGATTACAGCTATGACTCACTACACCTGGCTGTTTTATTGTTTCTGTGAGGTAGGGGTCTTGTCACATAGCCATGGCCCACCTAGAACTCAGTATGTACCCCAGCTAGACTGGCCTCAAACTTGTGGTAATCCTTGCTGCTCCCTGCTGGTCCACAAGCTTCTAGGGATACTCCTGGCTCTACCAGGAGTGGTGGAGAACTGGCTTACAGACGTGTGCTACCACTTCTGGCCTCGTGTGGATTCTGGGCAATCCCATCCCAAATATGTAATACTTTTTTAGTGAGACTTGGATCTTAGCATTAAAGCTTTTCTGAACCACGTTTTTCTTTTGAAAAAGGAAACTTTCCTTAATAATTTACTTCTGTTCTAAATGTAGCATCACTTTTATGGCAGGGGTTCTTCTACAAGAAATTACTTTTCCATAAAAGGAAGAGGTTTTTAATGGCGAAGTGCAGATGTGAGCAAGTCAGAAGCTGAAACTCTGTGGGCATTTTCTGTTGCTTTCTAATCAGATTGCTAACCTAAACAAATATTGAGGTTTCTGGTTGTTGCTGCTGATTGTTGCCTTGATTTTATAATTTACTTCTTAATTTTAAAACATTTTAGTTAAACATTTTGGTATTATTGGGACTGCAGCATCTTACCAACTTATATCAAGGCTGTTGATGTGATTATTACCAACAAATCATATTCCAGTTCATATAATTTACAACACAGTCATCCTAAATTCGAATGTCTTAGTCTCCTTTCACAGCCCAAAATTTGAGGTGCATTTCACCCCGTTGTTTGAAATGACATCCACCCGTGCTCTCCAGTAAAGGGAACATCCTTCTACTCTGTGTGCAG
Seq C2 exon
GGGATGCCCACCAGCGCCTGGGCCAGACTAAGCTCATCATTGAGGAAGCTAACAAGACGACAATGGCCGTCCAACAGGTCACCACACCGATGGCTAACAACCTCAGCAACTGGTCACAGAACCTTCAGACTTTTGACTCTTCTGCCTACAACACTGCAGTGAACTCCGCTCGGGACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000599:ENSRNOT00000000737:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.344
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.8=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]