RnoINT0084205 @ rn6
Intron Retention
Gene
ENSRNOG00000002667 | Lamc2
Description
laminin subunit gamma 2 [Source:RGD Symbol;Acc:621053]
Coordinates
chr13:70593337-70595011:-
Coord C1 exon
chr13:70594889-70595011
Coord A exon
chr13:70593527-70594888
Coord C2 exon
chr13:70593337-70593526
Length
1362 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
TTCAAACCTCCATTTCACAGCCA
3' ss Score
6.27
Exon sequences
Seq C1 exon
ATGAAGATGGTTGGAAAGCAGTTCAGAGAAATTGGGCGCCTGCAAAACTCCACTGGTCACCGCGCCATCAGGATGTATTTAGTTCTGCCCGAAGATCAGACCCAGTCTATTTCGTGGCACCCG
Seq A exon
GTAAGTGTGGGGTGGTTTCTGCAGAAGCCAACTGATAGGACTACAGAGTCAGGAGAGAAAACTGTTGGAAAATGTGATGTGGGACCCATCACCGTCACTGGAGCTCCAATAGACAATGGGAACTTGGGCTCAGTCTGATAAGTCACCATGCCATGACACTGTTGAACCATCCAGGCATCCTGGAGGTCAACCCTGACCGGGATTCCCTCTGTTATCCCCTATTAGTCAAATGAGCAGTTCCTTTATTTCCCACAGAGCATGAAGTCAAACTTAATGGTCTATTGAAAAGCAGATGGAAAAGTAGACAAAGTCATGTCTTTTGAAAAGTTAAAACGTTTATTTAATGTGCATGTTTGTGTGCGTATGGAAAGGCATACATGTGTGCAGGTTCCCTCAGAGGCCAGAAGAGGGTAGTGGGTCCCCTGGAGCTGTAGCTATAGGAGGCTGAGCCCTCTCCAGCCCCAAAGCATGTGCTAAAACTTGAAAAATATTGTTAGTGATCTGAGCCGCAAAGGCCTGGCTGGAATTTGAATCCTAGTTCATAACCTTAGCTAATGAGTACTTCCCAAGCAAGTGGCTCTTTTTAACATCTCTGAGCTTTAGTCCTCTCAGCTATTAAATGTCAGTGGGCATGCTAATAGTCAAGAATTATTGCCATCAAATATGAGCAGAGCTAGGGAGATGGCTTAACCCGTGAAGTATGCGCTGTGCAAACATGGAAACCTGCATTTGAAAGCTAGTGAAAAGCCAGTGACTGTGGCACATGCCTGAAACTCGGCCCTACAACAGTAGAGACAAGAGAATCCCTGGGGCTTGCTAGCCAGAGACATTTGCCAAATCGGTGAGTTCCAGGATTAGTAAGAGACCATGCTTCAAAAATGAAGGTGGAAAGCGATGGAGCGGGACATTCAACTCGATATCTAGCCTCCACATGCCTGTTCCCATGCATGCACACACTTCATGCTCATCTGTAAACACATAAGCACACCCATAAACACATGCACGCAAATATGATGTCTGCTAAGCATTCGCTAAAATGAAAAACACTTATATACAACAAATGACACTCTTGCTGTTCACCTTGGATCTTTGTCCATCAGTCTGTCTATAGTGGCCATGTCATGAGCCATCCAATAGGGAGAATTGTCTTACATTAAGGCTTCTCTGGAGCTATGTACATAGCCAAAATATCACACCCACATCCCATGACATGACTGACCGACCTTCTGTCATGGTGGTTTGGGAAGGAAGGATGGGTGGGTCACAAAGGACTCCAACAGAAGCTGACGATGTTAATTTAATTCGTTCACGCGCTTGTCTTCCCTGTAGTACCACTGATCTTTTCAAACCTCCATTTCACAG
Seq C2 exon
CCAAATTTCTCGGTAATCAGCAAGTGAGTTACGGGCAGAGCCTGTCTTTTGACTACCGCGTGGACAGAGGAGGTCGACACCCATCTGCCTATGATGTGATCCTGGAAGGTGCTGGTCTACAGATCAGAGCTCCTCTGATGCCACCAGGCAAGACACTTCCCTGTGGGATCACAAAGACTTACACGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002667:ENSRNOT00000036947:7
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=PU(3.8=11.9)
A:
NA
C2:
PF0005213=Laminin_B=FE(48.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGATGGTTGGAAAGCAGTTCA
R:
GAACGTGTAAGTCTTTGTGATCCC
Band lengths:
310-1672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]