RnoINT0084186 @ rn6
Intron Retention
Gene
ENSRNOG00000002667 | Lamc2
Description
laminin subunit gamma 2 [Source:RGD Symbol;Acc:621053]
Coordinates
chr13:70588207-70589188:-
Coord C1 exon
chr13:70588970-70589188
Coord A exon
chr13:70588390-70588969
Coord C2 exon
chr13:70588207-70588389
Length
580 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTCCTTCTTCTACACTCCAGGGG
3' ss Score
7.25
Exon sequences
Seq C1 exon
GTACAGGGTACATTGACAATGTGACCCTGATTTCAGCCCGCCCTGTCTCTGGAGCCCCAGCACCCTGGGTTGAACGTTGTGTATGCCCTGCTGGGTACAAGGGACAATTCTGCCAGGAATGTGCTTCTGGTTACAAAAGAGATTCAGCAAGACTGGGGCCTTTTGGCACCTGTGTTCCCTGTAACTGCCAAGGGGGAGGGGCCTGTGACCCAGACACAG
Seq A exon
GTGAGTGAAATGACACCTGGACCAGGTGTCTCTGGGTAGAGGCAGGGGAGTGGGTCTCCTGTAGAAGAAGCAAGGGTGGAGGAAGAAGTGTCATACCTGAGATCACTTAGGAGATGGAGAAAGAATGGGGAGTATGGGACCGAGGTCAAGGGAGACGGATGTGGTGACAGTACATGTGACCTCTTCCATTATGGAAATGCCATAGGCTTGTGAGCGAAAGGTGCCAGGTTACAGGAAATGACCGTCATGCTCCGTACAAGGTGGGGGGACTGGTATTGAGTTGCAGGAATTGTGTGGGGAGATCAAAGGCAAGTCAGGCTCTAAGTGAGGGTGGTGGCAAGTGGTGTGACCGTGAAGGGCAGGGGAACAGTGCTATGCTACGGACAGTGAGGGTGTGTGCGTGTGAACTGAATGTGACGGGTTATCCAAGGTGGTGGCCATGTTTCTATTTGGATCAAGGGTGAGAATGAATGCCAGTGTTCAGATGCTGTGGGAGGCTCTGGAGAGGCTGGGGCCTCCAAAGACTGATCCCCACATTCTGTCCACACTGACTCTGCCATTTCCTTCTTCTACACTCCAG
Seq C2 exon
GGGATTGCTACTCAGGGGACGAGAATCCTGACATTGAGTGTGCCGACTGCCCCATTGGTTTCTATAACGACCCGCACGACCCCCGCAGCTGCAAGCCGTGTCCCTGCCACAATGGCTTCAGCTGTTCCGTGATGCCTGAGACAGAGGAGGTGGTGTGCAACAACTGCCCCCCTGGGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002667:ENSRNOT00000036947:10
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:
PF0005213=Laminin_B=PD(18.3=32.4),PF0005319=Laminin_EGF=WD(100=50.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(52.8=45.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGACCCTGATTTCAGCCC
R:
GTCTCAGGCATCACGGAACAG
Band lengths:
343-923
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]