RnoINT0139609 @ rn6
Intron Retention
Gene
ENSRNOG00000026065 | Slit1
Description
slit guidance ligand 1 [Source:RGD Symbol;Acc:69307]
Coordinates
chr1:260872417-260874782:-
Coord C1 exon
chr1:260874714-260874782
Coord A exon
chr1:260872489-260874713
Coord C2 exon
chr1:260872417-260872488
Length
2225 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ATGTTCTTGCTTCTTTCCAGCGA
3' ss Score
9.21
Exon sequences
Seq C1 exon
CTACTTAGATGGGAACCAGTTCACACTGGTTCCGGGACAGCTGTCTACCTTCAAGTATCTGCAGCTTGT
Seq A exon
GTGAGTATCCATGGCCCTTGAGGACCCCAGGCCTGCCTGGCTAGGAGAACCATTGGCACCTAAACACTGTAGTCCCACCTTTCCAAGAATCTCCCAGTTGTGGGCAGATGCTTTTAATAAATCCTGCCTGTTGCCCCATTCTTCAGGGAACTCCTATACTCAAGAGCTGTTTTGCCACCTGGTGGCTAATCTTGGAATTGCATCTTTTCAGACCCCCATGGGTTGGGCCCTCGCTCTGCCCTCACCAACTCCCCAATCCTCTCTGTAGGCTGGTAATTATTGTTGTTCTGCGTGGCCCCTGCAAGGGATGAATAGAGGGTGATACAGAGTTTCTCAGTTCAACCCCTGTCCCCCAAACCAGCTGAAAAAAGCAGCTACCAGTCTGCTTTCTTAGAGAAAAACCTGCCTTTCTGCCCTGTGGGAGTACTGAAAATAAAACCCCTGGATAATAAGGTCAACTGCTCTTAGCTTCCCAGTGCAATTAGTTCCTCCTTTCAATTATTTTTGTCTGTGTATTAGCCAGAGTCTGTCAAAGAAGTCCAGAGAGCACTCCATCACAGTGTGGCTTGGCACAGAGCTCTGACCAAGTCAATGTCAGTCTGAGAACTGCTTTTAAAGAGTTTGTTCTCAATGTCAACTGAGACCTCTTGTTGGCGGGTTTGTTCTTAGACAAGGAGCAAGAGTAGAAGTTGGCATACTGCTTCTTTCACTGAAAAAGCTTCGCTATGAGAACCCTGTTGCCACGGGCTGGTGGCATTCAGTTCAAGGCCTGGCCACTTCGCACAGTGCTGGTTTACAGAACTGTGATGCTCCAATTAGTCTGTCTTTGCTCGAGGACCAATGTGCTTTGAACATTTCGATGGAGTGGAGGACGAAATAGTGGCTGGTGTCAAGAGAGAGACTTCATTCTACAAGTGCCCCAGCCTTCCTTGTGGCCTGACCCTTGCCAGTAGCCCAGATCTACATGAGGACAGGGGCAAAGATTGGGAACGTCAAACTAGCTGCTCCTGTTAGGCTGCCCCGCCGGTATGGAAGACTCCATCTCCCCGTCACTAGGCAGGAAGGGACTTCTAGAAATAAGGAGGGTTGGGATTCTGTAAAGGCAGCTTCCTGGGTGCTGAAGGAAAGGCCTGCTGTTAATATCTTTTCAGAGCCAAGAGCTGCGTGTACAAGGTATAGCAGGCAGATTGGGAGGCCCCAAGGTCATGCATCTCCCTCAGACGGTCTAGGGAAGGTGTGGAAAGAGGTCAGGGGCTGCCTAAGTTGCAGGGTGCAGTAATGTCCAACACAGGCAGCTGAAGGTGAGGGCTTGGATGGAAGGAGAGCGCAGTGAACAGAGACTGAAAGCTGGTGAGAGGAGAAACCACACGTGGATGCTGGCCTGGTACAAGCAGGAACTTGGGGAGGGGACAGATGGGGAAAGTGATCCGGGGCCAGGCCACGACACCAGCGGTAGAGGTAACATCAATCTTAGTCTCAGGCTACTGGGCTGAGGAAGCACCAGGCAGAGCTCCACTGAGGTAGGACGCCAGGTGGAACAGTGCTCTGGGAAGGAACAGGCTGGGGTCCAACGGATGCACCATCAGCTCAAGACAGCGAGGGCAGCCAGGGTGGACTGAAGGAGTGCAAAGCTGGGAGCTTCCCTCCTGAGGCTCGTGCCTACCAGGGATTAGAAGATGGGGCCACAGGGGAGGAGGACACAATGGGGGTAGGTGGAGGGGTGTGTAAGAATGGCCTTCTGTACCTAACATGGCCGTTCACTGTAGGAGAAATTGCACTGATGGGTGGGGCCTAGCCCTGCTCTGGTCAGCTGGATGGCCTTGTGTGGGTTAATCACTCTGAAGACTCCAGCTTTTTATATGTAAAATGGGTTCTCACACCATCTTGTAGGTTTGGCCGCTAGTGTTCTAGCCACAGGGGAGGGTGCTTCCCAGAGAAGGGGCTGCTAATTCTGGTTGGTGGACGTTGGTCAGTGCCCTCAGAGGGAGCATTTGTATTGCAGAAAGGGTCAGGAGCCAGCTGTACCTACAGAGGGGAAGTGAGAGGCAGAGAAGGAGCCTAGTAGTCGATTGCAAATCCAGTGTGTTCCCACATCCTCACCAGACACCACTGGGGAAGGGCCAAGTGCAGATGGGGGTGGGGCGGGGGGGAGGAGAGGCTCCGGGAGCCATCCAGGGGCCAGGCCTTCTTTCTTTACAAACATCGATGTTCTTGCTTCTTTCCAG
Seq C2 exon
CGACCTGAGCAACAACAAGATCAGCTCCTTAAGCAACTCTTCCTTCACCAACATGAGTCAGCTGACCACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026065:ENSRNOT00000034758:22
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:
PF138551=LRR_8=PU(8.2=20.8)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]