RnoINT0084220 @ rn6
Intron Retention
Gene
ENSRNOG00000059507 | Lamc3
Description
laminin subunit gamma 3 [Source:RGD Symbol;Acc:1309399]
Coordinates
chr3:9280927-9282312:-
Coord C1 exon
chr3:9282165-9282312
Coord A exon
chr3:9281065-9282164
Coord C2 exon
chr3:9280927-9281064
Length
1100 bp
Sequences
Splice sites
5' ss Seq
ATGGTCAGT
5' ss Score
6.57
3' ss Seq
CCTTTTCCTCCAATCCTCAGGAC
3' ss Score
9.87
Exon sequences
Seq C1 exon
GTACCAGGAGGTGCAGGCAGCTCAGACTGCCCTGGGCATAGCTGTGGCAGAGGCGCTGCCCAAAGCTGAAAAGGCACTAGCCACGGTGAAGCAAGTCGTTGGTGCCGCAGCCCCACGTCTGGGCTCGATGGTCACCCCTGAAGCAATG
Seq A exon
GTCAGTTCAGCAACCCTGGATCGCCTCACGGGGTGGCAGTGAAGGTTCTAGATAACGCAGAAGCCAGAGGGCCAGGCGGAGGTGGGAAAGACTTCTTGTTAACTGGGAAGTGGCCTGCTGAAACAGGAAGGGGTTCAGCCAGTCATTCATACCAAGACATTAATACTATACACGAATAAGGACATCAGAGAGATGGGGGTGATGTGCGTCCCAGTTCTCGCTCCAGCAGTGACCTTGACCAAGGATTTCCCTCCCTGAGTTCTAGCCACTAGTGAGCCTCAATCCTATGGACTCACCCTCCTCTAGCTTAATTTTAGAGGTGGGAGCTGGAGGGGGATCTAGTGAGCCCAGCAGCCAACACTCCACATCCTGCCTAGCTTGTCTGTTGGGGAATCCTGAGATCTCCAGCCTCAGAAACCTGGCTTTAATAGAGCACTAAGCCAGCTTGGTGCAGCTCCTGGGGAGAGTCTGTGCTCAGCATACACAAGGCCCTGGGTCCCACCCACAACACCAAGGAAGTAAAAACCAGAAAGTTATCTATCCAAGTGCGTTTGGGACAGAGGCTGCCCGCAGCTTCCGTCTGGTGGCTTCCCTTGTTTTTTTCACATGCAATAACCCGGATGACCCAGCTACCATGGAGGGCTCAGGATCATACACAGCTACACGGTTCCGCCTTTCTAACATCTGGAACACTGTATTCTGAAGTATATAGGCCAAGGTTCAGATGGAGGAAGGACTGTGGGTCTGGGGAGGGACCCTCACCGTGCAAAGAAAAAAGGCAGTCCTACCCACAGGTCAGGACAGGTAGCCGGAGTTGCCCAGGGTTGCCCAGCTAAAAATTGGTGGGGCTGGGGTCTGAGCCTCCAGTGACGGACTCTCCCAGCCTGGTTCCTCTGAAACCCTACTGTATCCTGCCATTGCCTTGCCTCTGGATATATGAGGTGTTTGGGAAGACAGGAGGCACTCTGGGAACAGGATCAAACGTTTCAGTTCTGGGCAAGTAGCTGCAGGCTGACCCTCAGCACAGCGGGGCACCTTTCCCTGAGCAGAGGGTCTGGTCCTCAGCTCTACCTGAGCCTTCCTTTTCCTCCAATCCTCAG
Seq C2 exon
GACTCCCAAGCTAGATACCTAGGCCGGAGAGTGAAAGCCCTGGAGCAGAAGCTGCAGCAGAACCAGGCAGGCCAAGCGGTGGGAGCCCTGCAGGTAGAGGCTGGGAGAGCCTTGAGGAAGGTGGAGCCCTTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059507:ENSRNOT00000090137:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCAGGCAGCTCAGACT
R:
CTGCAGAAAGGGCTCCACCT
Band lengths:
277-1377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]