RnoINT0139679 @ rn6
Intron Retention
Gene
ENSRNOG00000007377 | Slit3
Description
slit guidance ligand 3 [Source:RGD Symbol;Acc:69311]
Coordinates
chr10:20472325-20474218:+
Coord C1 exon
chr10:20472325-20472396
Coord A exon
chr10:20472397-20474054
Coord C2 exon
chr10:20474055-20474218
Length
1658 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CTTCCTCTTCTGCCTTCCAGGGC
3' ss Score
11.7
Exon sequences
Seq C1 exon
AACCCTCCATGGCAATGACATTTCCAGTGTTCCTGAAGGCTCCTTCAATGATCTGACGTCCCTCTCCCACCT
Seq A exon
GTAAGTGGCCCCCTTTCTTAAGGGGCATTGGCTCAAAACAGAGCGTGATAAAGGTGTCAGTCATCACTCCGTGTATATTCTGTCCTCGTGTTAGGCATTTGGCCCTCCATAGGCACAGGGGACTGGCTCCAGGAGCCCCAGTTACCCACAAATGCCAAGTCACTTACGTACAGTGAGGAGGCGCATGCGTACAATTCTCCTGTGGGCTCAAATAGTCTCTGGGCTACTTAAGACACCTGGGGCAATTGTAAATGCTTTGTAAATAATGGTTATACTATACTGAGTGTAGAATAAGGGCCACCAAAAAATGGGTTTAATGTATCCATTACATATGAAACTTTTTTTTTCATTTTATTTTTGAGATTTTTATTAGAGTTCAGTGGAAAACAGACTGATAAATATATGTATATATGTATGCATGTATCTATCTATGTATATATGTATACATATACATAGATATATAATAAATTAATATACATAATAATATAATATAATAATACATAATAAATAATTAATATTAAATAATTAATGAAACTTTTAAAAATTACTTCTGGCCCACAGTTGGTTGGGTGTGCAAATAGGAAACCTGAGATTCAGGAAAATGAAAGGGGGCTCATTTTGAGATACTGTATTCAAACCGTACACAAGGTTTTATTTCAGAAGACTTCAAAGGCTTCTATCCCGCCAAACAGTTCAAACCCCTACTATACCCTAAACACTTTTGATGAATTATCTTCTATATTTTTTTACGGCGTTAAGGCGTTAAGGCGCTTTATTCCTTCATATATAGGATGAAATTCAGACTTAGGAAGTTAAAGAATTTTGCCTGAGGCTGCACAGCCAGCAGGAAGCCAGCCCCTCCATGTTTTCCTTGACTCCAGTGGGCGTATTCTCAACCACGCTGCATCCCTTCCTTATTCTACTCAAGGAAATTGAGACCCTAAATGATGGGTGACTACCTAAAAGCTACCCATCAAGCCAATGAGACTATGGAGTAGCGCTCAGTCCCCTGACTCCCAGCCAGCCCTCTTTCCCTAGCTAGTACTCTCGGGTAGTGTTTCTGGGTACCTAGCTCAGTTGGTAAGACGGTAAGACTGTAGTCCTCCCCTGTAGAGAGTTTAGTTATGTTCATGTTGTGTGCATAGGCTACAGTATCGACATGTATGCATTCCATAAATCAAACGTAGAAATGGTAGAGAATAGGACTTTTTTTAAAAAATGAATTGTACTGTTTTCTTCCCAATCACTTTGGAGAAATTTGGGGGTAAGCTCTATCTCACCCCCAAATCTTCAGCCTCATTGACTGGAAGCTGCTTCCTGAATCTGGATCTTTGGAAGCTTTGAAGAACAAATCTAACAGACCCTTTGCTTGAGAGCCACATGAGAAGGTGGCCAAGGCCTGGAGGAGAGTTAAGGACAGAACTTTCCAGAGCAGTGAGAAGAAAGCCTCAGAGTGGGAAGTCACTTAGGTGGGGATGGAACATCTACTGAATTGGAAATAGACTCTGGGAACTTTGATTTTTTTTTCTCCCCTTAGTGGAGATGTCTTTTAGCCTGCACACCAGAGTCCCCTCATTTAGTTTTCAAACCTTGAGTTTTCAGAAAGCCACAGAGGGGCAGCCTGTGGGCCAGGCCTAACTTCCTCTTCTGCCTTCCAG
Seq C2 exon
GGCCCTGGGAACCAACCCTCTCCACTGTGACTGCAGTCTGCGTTGGTTATCAGAGTGGATAAAGGCTGGGTACAAGGAGCCTGGCATTGCCAGATGCAGTAGCCCCGAGTCCATGGCAGACAGACTCCTGCTCACCACCCCCACCCACAGGTTCCAGTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007377:ENSRNOT00000009714:20
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=PD(11.5=28.0)
A:
NA
C2:
PF0146319=LRRCT=WD(100=46.4)
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:
ACCCTCCATGGCAATGACATT
R:
CTTTGCACTGGAACCTGTGGG
Band lengths:
235-1893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]