RnoINT0084015 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175584974-175585986:-
Coord C1 exon
chr3:175585869-175585986
Coord A exon
chr3:175585093-175585868
Coord C2 exon
chr3:175584974-175585092
Length
776 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
ATATCGCCCGTTTCCTGCAGCCT
3' ss Score
7.88
Exon sequences
Seq C1 exon
GTGTTCCACGTGGCCTATGTGCTCATCAAGTTTGCTAACTCACCTCGGCCTGACCTCTGGGTACTGGAACGGTCCACAGACTTCGGCCACACTTACCAGCCATGGCAGTTCTTTGCCT
Seq A exon
GTGAGTGTCCTGAGCTATAGGACCAGGGTCCTCGAGATGGGGCTGTAGTTGCTTCAAAGCCCCTGATGCCAAGCCTGGACCCCATGATGGCCTCTTTAGGGCTTATGGCTGATGGCGCCACCTAGGGGTAGATGGGAGCTTATCGACTCCCACACTCAACGTTGGATGCAACCGGTGTCACACTGGTGGTACCAGGATCTTTGGGTCATTTATGGCTTCTCTAGATAGGTTTCAGCTCAGGAGGCTCCTTGTGGTAACAGAGCAGCCCTGGCAGCTGTGGGTCTACCTCCTGCCAACCTCACCGCCTGCAGCAGGAGACAGCTGGAGTCCTTGGCAGGCCCGGCCGCATGCCACCTGACCAGCTATGTTGGCGGAGTGGGGGTACTCTGATTAGATAGGCCTGATGACACATCCCCCAAAACTCCCTAGCAGAGAGTGGGAATGGGGTGGCTGACTGCAGACCATGCCTGGGGAAAGGTTAAAGAACGCCCAATCTCTGGCATGTCCCGGGAAAATTTAGGCCTGAGCAATGCCTGAGTAAAATCCCTGAATGCCTGAGTGAAGTCCCTGCAGTCCAGTCTGGCTTGGCTGCCTGAGGCAAGGGCCCTCTGCCTTATGCCAGGGTTTTGCTGTCTGTTCAATAGCTCCCGCTGGTCAGTAGAACACAGGGCAGCAATCTGTTTCAGAGCGTGTAGCCAGCATGGGATGCTAGGCTGGGGCCCGGGATGGTTGTCTATTTCTGGTACCCGTCTTACCATATCGCCCGTTTCCTGCAG
Seq C2 exon
CCTCCAAGAGGGATTGTTTGGAGCGGTTTGGACCTCGGACTCTAGAGCGCATCACGCAGGACGACGATGTCATCTGCACCACAGAGTACTCCCGAATAGTGCCTCTGGAGAACGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:3
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:
PF0005512=Laminin_N=FE(15.4=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(15.4=100)
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:
GTGTTCCACGTGGCCTATGTG
R:
GCCGTTCTCCAGAGGCACTAT
Band lengths:
234-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]