RnoINT0139646 @ rn6
Intron Retention
Gene
ENSRNOG00000003840 | Slit2
Description
slit guidance ligand 2 [Source:RGD Symbol;Acc:69310]
Coordinates
chr14:66897942-66898940:-
Coord C1 exon
chr14:66898869-66898940
Coord A exon
chr14:66898014-66898868
Coord C2 exon
chr14:66897942-66898013
Length
855 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TGATGTGTGTCTATTTACAGAAT
3' ss Score
9.38
Exon sequences
Seq C1 exon
AGACTTAAGTAACAACAGAATAAGCACCCTTTCCAACCAAAGCTTCAGCAACATGACCCAACTTCTCACCTT
Seq A exon
GTAAGTGTGGTACTGAATATTCACGTATTCCTGGGGCAAGAAGGGTTTATTAGATGGTTCCAGATGAACAGAGAGAGACTGTCATCTTATGCAGTGTTAATACCATCCAGAGAAATTGAAACAACAGAGACAAAGTTACCCAAAATGTTAGATTTAGCTTCACACACACACACACATACACACACACACACGCTATTTTTCAAAGATCATGACACAGTTGTTAGAAATCCTTAAACTATGCTTTCCGGGGTGTGTTGGTCAGTTATATTGCTGTGAAGAGATACCATGATAACAGCAAACATTTACAAAAGGAAGCATTTCATCGGTGCTTGCTTAAAGTTTTGGGAGTTTAGTCCATTTTTATCATGGCGGACAGCATGGAGGCTCACAGGCAGACAATGGTGATGGAGAAGCGGAGTTCTACATCTGGATCTGCAGACAGTTGTAAGAGAGTTTGTGCTTAGAATGGGTTTATTAAAACCTCAAAGTCAGTCACATACCTCCTCCAACAAGGCCACGGTCCATTCATTTCAAATAGTGCCACCCGCTGGTGACCATGTACTCAAATCTAGTCGCCTATGGGGGCCATTCACATTTAAACCACCACTCAGGGCATGATATCTCAGACAGAGAATGAGTGAGGAATGTGTACATGGTAGGAAAAAATTTAAGTTATATTTATGTAATGTATCATAATAGAATTAAAGCACATAGTTGAGCAATATAAATGATAGATAAATACAGTCAATTCATAAATTGCTCAAATAACTGTTTTCTTAACGGATTTGCTTTAAAACGGCATTTGTATATTACTAGACTCCCAAGTTAGAAAAGCTGATGTGTGTCTATTTACAG
Seq C2 exon
AATTCTCAGTTACAACCGTCTGAGATGTATCCCTCCACGGACCTTTGATGGATTGAAATCTCTTCGTTTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003840:ENSRNOT00000005477:23
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:
PF127992=LRR_4=PD(38.6=68.0),PF138551=LRR_8=PU(8.2=20.0)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]