RnoINT0084193 @ rn6
Intron Retention
Gene
ENSRNOG00000002667 | Lamc2
Description
laminin subunit gamma 2 [Source:RGD Symbol;Acc:621053]
Coordinates
chr13:70576461-70578416:-
Coord C1 exon
chr13:70578267-70578416
Coord A exon
chr13:70576606-70578266
Coord C2 exon
chr13:70576461-70576605
Length
1661 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
TCTACTTTTCCTCCCCACAGATT
3' ss Score
12.76
Exon sequences
Seq C1 exon
CCATGTTGAGTCAGCTAACACAATGAAGCAGCTAACGAGGGAAACCGAGGACTATTCCAAACAAGCACTTTCATTGGCCCGCAAGGCTCTGAGTGGAGGAGGTGGAAGCGGTGTCCTGGACAGCTCCGTGGTACAAGGTCTTATGGGAAA
Seq A exon
GTATGTTCAACCTGTCCTCATCGGGGTAGCCATAAAAGCTGACTCCTCCCAGTGTATAATGTAGACCACATTATTAATAAGAAGGAGGTCTGTGTGGAGCCATTATTGTGGGTTTCTGCTCTTTGGGATGGGGTCAGGATGAAAGCTACCAAGAACAAGACCTTCTTTAAGAGACACCGAGCGAGATTTAGAAGGAGGTGAGAAGGTAAAACTGACTACATAGCCAAATACAGGATGATGGTTCATGTACATCACAGACCTATGAGCTACCAAATCACAGGGTAGAAGTTGGCCTGCCAAGTCAGGTTGCAGCCTAGTGTACTGGCCTGCTGCTGGTCCCCAGGCTTCTTGATAGGATTGTCACGGGTGGAGAAGATCTAGAAAGGCCAAGTGGAGGTGTCTGGAGAGGAACACAATGTGGAAAGCCCTGATGGCCAACCTGGTGGTGCCTTCATATGCTATTTGGATGCAGACCTTGTTTGAACTATAACTGGCCATAAAACTTTGAGGGTCATGGAGGGAGCCGGGGATGGAGGCCTGTCTATCCTCATAGTGCCTAAGGATTCCCTGGTTACACAAATTCAGTGCAGAAGTACATCGGAGGCACAGCGTGGGTCAGAGTGTTACAATGTGTGTTGCCTAATGGGGGGAGGTCAGGATGCTTATAAGAAACAGTTCTCTCGGTACACAAAGAACTCTGGAACTCCAGACATGACAGAGGTGATGTACAATAATTCTCATGCTGCAACCCGAGAGGATCCAGCCAATGAGAAGAAGCCTAAGAGAGAAGTGAAGAGGAGGTGGAACCCTCCCAGAATGCCCCTTGTGCATGAGAAAGATTGGGTTGCTCGGAAGAAGGCAACAGAGTTCAGGAACAGGCTGCTGAGAACTAAAGCAATTATTGGCCAAATAATAATAATAATAATAATAATAATAATAATGGCAAGATAATGAGTATTACTTTGGGGAAAGTATTTTTAAGACTGTGAAGAAGATTATGGTATCTAAGTACAACATTCTGGCTGAGACACGATTATACAGGGAGAGACGGTTACCCTCTAGCTTGTGAAGGTATTCTATAAACCCATCTGACAGGACCAGAGACAGAAAAATAGCATTTGTGTTCTTAGCAGTTGGGAAGCTTCAGTTGAAATTTTCTAGCCAAACCTATACAAGCTGTATTTAGATTATAGAGAGAGCCACTTTTCTAACATATAACCTAGCTTGTTTATCCTGCTTACTCTAATTACACGGTGCGGGCACAAACACATGCACACATACACACACAGACTGAGGAAGATGGGGGCAGGGAGAGGGAGTGTGAGTCACTAAGTAAACAGCTTCTGGCTGGTCTTTAACTCACAGAGATCTACTTGTCTGCACATATGTGTGTGTGTGTATATACATATATATATATATGTGTGTGTATATATGTTTGCATATATATATATATATACATATATATATATAAAAACAAAAAGTATGTTCTGCCACATATTGTTTGTACTTGTAATCCTAGTTCTTGGAGGTAGAGGCAGGAGGATTGCAGTAAGCTTCAGACCTGCCAAAGCTATATCATGAGATCTCAAGGCTCCCCCTCCATTATTGTATTATTACTACCATCATCATCATCATTGACCATCTACTTTTCCTCCCCACAG
Seq C2 exon
ATTAGAGAAAACCAAGTCCCTGACCCAGCAGTTGTCAAGGGAGGGCACCCAAGCCGACATCGAAGCTGATAGGTCCTATCAACATAGTCTCCGCCTCCTGGATTCAGCGTCTCAGCTTCAGGGAATCCGTGATTCCTCTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002667:ENSRNOT00000036947:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.408
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGTTGAGTCAGCTAACACA
R:
CTGAAAAGAGGAATCACGGATTC
Band lengths:
295-1956
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]