RnoINT0090024 @ rn6
Intron Retention
Gene
ENSRNOG00000019875 | Matr3
Description
matrin 3 [Source:RGD Symbol;Acc:3052]
Coordinates
chr18:28386139-28386977:+
Coord C1 exon
chr18:28386139-28386361
Coord A exon
chr18:28386362-28386855
Coord C2 exon
chr18:28386856-28386977
Length
494 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
ATGTATGTTTGTGTTTCTAGGTA
3' ss Score
10.42
Exon sequences
Seq C1 exon
GTGGACAAGATTGAGGAACTTGATCAAGAAAATGAAGCTGCATTGGAAAATGGGATTAAAAATGAGGAAAATACAGAACCAGGTGCTGAATCTGCTGAGAATGCTGATGATCCAAACAAAGACGCAAGTGATAATTCAGATGGCCAAAATGATGAGAACAAGGAGGACTATACAATTCCAGATGAGTATAGAATTGGACCATATCAGCCTAATGTTCCTGTTG
Seq A exon
GTGAGCTTTAAAGATTTTTTTCTTCTTCCCCTTTTCTATTTCTCCCAACAAATTTATTAAAATAAGACTTAAAAATTGATCGTATATAAGCTCTGATAGTGTATAAAGTTATGCCCCCTGGTAAATTTAATAATTTGTAAATTTACTCTAACACTGCTCTATATTTCTCTTTCTTGTGTCTCCTAATTTTGTATTATGTTACCATTCCCACTGTGTTTTCTCCTCATAATGATTTCTAAAATTACACATTGCTTTTTGTTTTGTGTTTGTTATATATTCTTGTCTTTCATTTTAAGACTACAATTAGGTGGCATCTTGAATATTAGTTAAGTAAAAAGAAAGGGTAATGTGATGTTGTTGGTGTTTTTTAGCTTAGGCCATACTGGACTTCTCACACATGTTTTCTGATTCAAATTATATTGACAGGAAAAAAAAGATTTGAGACTAAAATTTAAGTTTACTTAATTTGTAAGAATGTATGTTTGTGTTTCTAG
Seq C2 exon
GTATAGACTATGTGATACCTAAAACAGGGTTTTACTGTAAGCTGTGTTCACTCTTTTATACAAATGAAGAAGTTGCAAAGAATACTCATTGCAGCAGCCTTCCTCATTATCAGAAATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019875:ENSRNOT00000026949:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.960 A=NA C2=0.049
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGACAAGATTGAGGAACTTGA
R:
TAATTTCTGATAATGAGGAAGGCTGC
Band lengths:
342-836
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]