RnoINT0139666 @ rn6
Intron Retention
Gene
ENSRNOG00000003840 | Slit2
Description
slit guidance ligand 2 [Source:RGD Symbol;Acc:69310]
Coordinates
chr14:66955240-66956535:-
Coord C1 exon
chr14:66956524-66956535
Coord A exon
chr14:66955379-66956523
Coord C2 exon
chr14:66955240-66955378
Length
1145 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
CTCTCTTTTTTCTCCTTTAGGTC
3' ss Score
14.28
Exon sequences
Seq C1 exon
ATGAGGAAGAAG
Seq A exon
GCAAGTTAACTCTGTGTGTGTGTGTTTTGTCCCTCCCCACATTTTTATAGATTTAGAATATTGTTGTCATTTGAGAGCTTGTGTGGAGGGGTGGGTTTAGCGGCTAGTCCGTTGTCTCTTCCTGGCACTTGTCTCCCATTGGGATGGACCCTTTCCAGAAGATCCCAGAGGGTTTTCGTGATTTTCTCCAGAAACCATGGATAAGCAGGTGACTGTTTGATGTAGCCTGGCTGATGATGGTCTGGTTTTCATTAGAGAGGTCATGAAATCTGATTTCAGATTCTTTTGCTTTCATATACTGAATAGGGAAATTACACAAGTCCAGGTGACTGATTATAGCAGAAATATCTATCAGAGTAGGCCCTGAAAAGAGTCATTTGGATGAACAATTACAGAATGATATCCCACAAATTACTATAATAATTTCCAAGAAAGCAGCAATTTTGAGTCTATCCAGACACCAAACTTTTATTATATAGTTTTCCCCTCCATTTGATGGCATAGGATAACTTAATTTGGTCAATGGCTATGTCAACCAAAATGGAAGTCCTCTGTATTTTTTTAAGACACAAAGTAAATTATACTACAAGCTCCATTAATCTGATTAGAAATAATATAAATTATTCTGAAGTAGCAACTGTTTTTGGAATTAGACTTCAGGCCTTGAATCTGAATTTAGTTTTACTAATATTTTTCAAGTTCAAAAAGTCTTACAATTTGGAGATGGAGAGATGGCTCAGGGTTAGGAACTCCATCCAGAGATCCTGAGTTCAATTCCCAGTAATCACATGGTGATTACTTTTATCTGTAATGAGATCTGATGCCCTCCTCTGGTGTGTCTGAAGACAGCTACAGTATATAGCTATATATAAAATAAATAATTATTGTTAAAAAAGAAAGTCTTACAATTTTTATGGCAATTGATGAAACATCAAGAGAAAAATGCATTGAATTTCAACATATAAATACATATATTCCACAAATATTCTGGACGCTTACTTAATGAGTAAGTCCAAGGCTTTTGATCTTTGTCTCCTGCTTCCCTAACTGAGCAGTTTGCATGTTTCTCATGTTTCTCGATTGTGAAATTCCAGAGAGAACTCTAACTGCCATTGATTTCTTTCTCTCTCTTTTTTCTCCTTTAG
Seq C2 exon
GTCACCAGTCATTCATGGCTCCCTCCTGCAGTGTGCTGCACTGCCCGATTGCTTGTACCTGTAGCAACAACATTGTAGACTGCCGAGGGAAAGGTCTCACTGAGATCCCCACAAATCTGCCTGAGACCATCACAGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003840:ENSRNOT00000005477:9
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:
NO
A:
NA
C2:
PF0146213=LRRNT=WD(100=59.6),PF138551=LRR_8=PU(8.2=10.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]