RnoINT0084005 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175573249-175573973:-
Coord C1 exon
chr3:175573868-175573973
Coord A exon
chr3:175573349-175573867
Coord C2 exon
chr3:175573249-175573348
Length
519 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
CCTGTTCTTTTCCAACACAGGCT
3' ss Score
8.47
Exon sequences
Seq C1 exon
GGCAATGGGCAGTGTTTCTGCAAGGCTCATGTGTGTGGCAAGACCTGTGCAGCCTGCAAGGATGGCTTCTTTGGCCTGGATCATGCTGACTACTATGGCTGCCGTA
Seq A exon
GTAAGTGCTCATACACCGCCCCCACCATGATCTGTGTTGTGTTATGCACACTGGAAGTCTGGGGCCCAGGGAAGTACAAGTGGGTCAGGCAGGGAGGGGTCTCATTCTGACAACAGCAAGAGGAGCAGATGTACACACACACACACACACACACACACACACACACACACACACACACACCAGTCAGCCAGCCAGCCAGCCAGCTTGTGCTGAGAGTATCTCTGTTCTGACACATGACCCTTTGCTCCCCATCCTGTGTTCCTAGCAGACATCACTAATCCATCCCAGTTCCCTTGCTCCTGCCCCCAAGCAGACCTTAAGAGTTGATGTTAGTTTATTTACTGAGGGTAGTAGATGCGAGAGGCTATGCATACATGACAGTTATCCAGGTGGACGTGCTGTCCCCTCTCTGGGCTTGGTAGGGACCTGCCTATGGGGCCTAACCTGGAGAGTTATGAGAGGGACCCCTGAGGGTGGTAGGGACCAGGTAGCCTCTGATCCTGTTCTTTTCCAACACAG
Seq C2 exon
GCTGCAGGTGTGATGTTGGAGGTGCCCTGGGTCAGGGCTGTGAACCAAAGACGGGTGCCTGCAGGTGCCGCCCTAACACCCAGGGCCCTTCCTGCAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:20
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:
PF0005319=Laminin_EGF=PD(66.0=91.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(72.7=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAATGGGCAGTGTTTCTG
R:
AGGAAGGGCCCTGGGTGTTA
Band lengths:
198-717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]