RnoINT0048271 @ rn6
Intron Retention
Gene
ENSRNOG00000001519 | Dlx2
Description
distal-less homeobox 2 [Source:RGD Symbol;Acc:1304853]
Coordinates
chr3:58180088-58181158:-
Coord C1 exon
chr3:58180974-58181158
Coord A exon
chr3:58180493-58180973
Coord C2 exon
chr3:58180088-58180492
Length
481 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCCTTTTTTTTCTACAAAGGTC
3' ss Score
9.13
Exon sequences
Seq C1 exon
ACAAGGAAGACCTTGAGCCTGAAATCCGAATTGTGAACGGGAAGCCAAAGAAAGTCCGGAAACCACGCACCATCTACTCCAGTTTCCAGCTGGCCGCCCTTCAGCGACGCTTCCAGAAGACCCAGTATCTGGCCCTGCCTGAGCGAGCCGAGCTGGCGGCCTCCCTGGGCCTTACCCAAACTCAG
Seq A exon
GTGAGCAAGGTGGGAGATGGCCTGGTTTAGCTAGGAAGCGGGCACGTTCGGAACAACTTTTCAGAAGTATACTTTCAACTGTGCTTTTTTTCCCCGGGCATCATAAACTTTTAGGCCCAACGCTAAAAAAATTTTTTTTCAAAGGGGGCCGCCGCGTGGGAGGAAAGAAAATGACCCGGGTGGACAGAAATCTGACACTACAGTGCCTTCCCACTCGCTGCTGCTAAAGCGGGTGACATAACTGGCCTGACACCACACTCACAGAGCCTTGGTCACATAGTTAGGGCTCATCCATCAGCGTTTTTGTGATCCCTGCAATGTAGTCAGAAGCAGCGGGGCTCAGAGGCTGGGCAAGTGTTCTGTTCACCGGCCCAGGTTGCTCACTGGCCACCTCTAACCGTCCGCCGGTCTCCACTCCGCCAACCTCCTGCCCAGGTTCCTGCACTAAAGCTCGGGGGCTTTTCCTTTTTTTTCTACAAAG
Seq C2 exon
GTCAAAATCTGGTTCCAGAACCGCCGATCCAAGTTCAAGAAGATGTGGAAGAGTGGCGAGATCCCCACAGAGCAGCACCCTGGAGCCAGCGCTTCCCCACCATGTGCCTCCCCGCCGGTTTCGGCGCCAGCATCCTGGGACTTCGGCGCGCAACAGCGGATGGCGGGCGGCGGCCCAGGCAGCGGAGGCAGCGGCGCGGGCAGCTCCGGCTCCAGCCCGAGCAGCGCCGCCTCGGCTTTTCTGGGAAACTACCCGTGGTACCACCAGGCTTCGGGCTCCGCTTCACACCTGCAGGCCACTGCGCCACTTCTGCATCCCTCGCAGACTCCGCAGGCGCACCACCACCACCACCATCACCACCACGCAGGCGGGGGCGCCCCGGTGAGCGCCGGGACGATTTTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001519:ENSRNOT00000002076:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.746
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=9.6)
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:
ACGCTTCCAGAAGACCCAGTA
R:
TGGTACCACGGGTAGTTTCCC
Band lengths:
342-823
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]