RnoINT0087341 @ rn6
Intron Retention
Gene
ENSRNOG00000007508 | Lrtm2
Description
leucine-rich repeats and transmembrane domains 2 [Source:RGD Symbol;Acc:1587001]
Coordinates
chr4:151384221-151385006:-
Coord C1 exon
chr4:151384812-151385006
Coord A exon
chr4:151384354-151384811
Coord C2 exon
chr4:151384221-151384353
Length
458 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
TCTCTCTCTCTCTCTCTCAGGAC
3' ss Score
13.18
Exon sequences
Seq C1 exon
GTCTTCCTGTCTCCGGGGCCAGCAGCAGAAGAGCAGGAACCCCTGAGCTGCCGCAGTTACCGATTGGCCAGCTGGCAGAAGTCCAAGCTTGTAATTCTCCCCAAGGTGGGCAGGGGGCAGTGAAGCAACTCACACCCTACCTGTCGGCAGGAACTAGGAAGGGAAGGGCCGGGCCTCTGCCTCCCCACAGCTATG
Seq A exon
GTAAGCTGGGTGGTGGGGGAGGAAGGGATGGGTGCATCTAGGTGGAGAGGCACAGGTGGGAGCTGGGATCTCATTTCCCTAGGAGAGATACGCCTTCACTTTCTCCCCTGTGGTGTTAAGCCCGGGGGAGGAAGCAATATTGCAAGGAAATAATTTTTAAAGCCCACCAGGGTGTATGGAGGCCTCAGGAGAGCGAGGGAAAGACAGGGGGGTATGGAGGGTAGGGGCCTAGGTTCGGCTGGCAGTTTTTGTGCCTTCCAGCTCGCCCCCAGGAGGTAAATATCTTGCTTGATCCTCTTGGCCCCCTCCTTGCAGAGCACCAGGAGAGGGGGTGAAGAATGTAAAGAGACACCCAGGCCTTGTCCCTGACCCCTGGGCCGGAACGGGCTCCAAACGCTTTGCTCCACCCATATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAG
Seq C2 exon
GACTGACAAGTGGCACATGCTGAGGGGCTCTCTCACTTCAGAGCTGCAGAGAGTGTGGGCTTCACCATGTTGGCACCAGGCGGTGGCCCAGAGCAGAGGAGCAAACTTGTCTTGCAGTGGAGACAGCTCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007508:ENSRNOT00000010238:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.130
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTTCCTGTCTCCGGGGC
R:
GAGAGCTGTCTCCACTGC
Band lengths:
326-784
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]