RnoINT0048277 @ rn6
Intron Retention
Gene
ENSRNOG00000010905 | Dlx5
Description
distal-less homeobox 5 [Source:RGD Symbol;Acc:2506]
Coordinates
chr4:32387741-32389652:-
Coord C1 exon
chr4:32389468-32389652
Coord A exon
chr4:32388413-32389467
Coord C2 exon
chr4:32387741-32388412
Length
1055 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGCCTTTGTTCCCCACCCAGGTG
3' ss Score
9.7
Exon sequences
Seq C1 exon
AGAAAGAAGTGGCCGAGCCAGAGGTGAGGATGGTGAATGGTAAACCAAAGAAAGTTCGTAAACCCAGGACTATTTATTCCAGCTTTCAGCTGGCCGCTTTACAGAGAAGGTTTCAGAAGACTCAGTACCTCGCCCTGCCAGAACGCGCGGAGTTGGCCGCCTCTCTAGGACTGACGCAAACACAG
Seq A exon
GTAAATCCGGCCGCCGCCGGGTACCGGCCCCGCCTCGCCTGCAAGCTCGGCTGGGCTGCATGGTTTGGTCCCGACCGGCTGGAGCCCATTCTCTAGCACTTTGCAGGAATTTACAGATAGAAAGACAACAACCATTGCATCTTTCCCTCCATGAGCCAGGCCCACGTGGCGGTGGGCACGGGATTCGTCGTTTGTCCCGAGTTGCTGCTCCTCCCCGCCCCGTCCCCCCACCCCCACCCGGGTTTAGCCACCAAGGAAGGGCTGAGGACCCAGGTTCCATAGTGCAAACAAGAGAAGGGGTATTGGGGTGGGGGGAACCGTCTCGCATTCTTGAGAAATGTCTGGATCTTTTCACAATGAGAAGCTCGCCAGGTACTATTGGCCTGTTGATGGGTCTCCAGCCACGCAAAGGCCTGAATCGTGGTGTCCCGGTTTGTCCTATCCCTGAGGCAGCTGGAAGTCGCAGCAACCTGAAGGTCGCGAGGTGGGGGGCGCTGTTGTACGGGGAAACCCTCCTGGATTGTCCCCTTTCTTTTCTCTCCCACTCCAGCCCGCTGGGGCCTAGAGTTAGGAATGTTCAAGTCGCCGCCCAGAGCTTCAGGCAGAGTCTGGCCTCCTGGTGCTGAGGGGACTGAAGGGAGTCAGTCCGGCATGAGATTGGGAGATCGCTCTTTTCCCTTGGCACAGTAAACCCACAGTCTGGCCCACACCCTCCCCCCCCCCCCGGGCACTCTAGCCTTCGAGCAGGAGAGGTATCCTCCCAGTGCACTGGTGCACAGGCCCACACTGCGACCGGGTCTAGAGAAAATAAAAGATAAAGCCTTGGGGTCGCACTCTTGCTGAAGCTGGCGCCTGCTGAGCTGGACAGGGCTCCCTCTGTGGGTCCCTCTTATTGCATAGCCTGCAACTACAACGTTGCTCCAGGCGATAGGCAGCTCGCTGCTGGTAGTTATCAGGGCAGGACGAGAGCCAGAAGAGTCTTCATTCGTCGCTCAGGGAAAGGCGCGGGCAACCTCTGAGTGTCCCGGTAACGTGTGCCTTTGTTCCCCACCCAG
Seq C2 exon
GTGAAAATCTGGTTTCAGAACAAAAGATCCAAGATCAAGAAGATCATGAAAAACGGGGAGATGCCCCCGGAGCACAGTCCCAGCTCCAGCGACCCTATGGCGTGTAACTCGCCACAGTCACCAGCGGTGTGGGAGCCCCAGGGCTCATCCCGCTCTCTCAGCCACCACCCTCATGCCCACCCTACGACCTCCAACCAGTCCCCCGCGTCCAGCTACCTGGAGAACTCGGCTTCCTGGTACCCAAGTGCAGCCAGCTCAATCAATTCCCACCTGCCACCGCCTGGCTCCCTGCAGCACCCGCTGGCACTGGCCTCCGGGACGCTTTATTAGATGGGCTACTCTCTCTTGCTCAGTTTTGGGACTACAGTGTTTTGCTGTTTTAGAAATCAGAAAGAAAGGAATTCATACGGGGATGTTTGAACAATGGAAACAAAGATTCATGTGTAAAGCTTTTTTTTTGCATGTAAGTTATTGCATTTCAAAGGACCCCGCCCCTTTTTTTACGAAAAGAACCCTTTTTTGCGCAACTGTGGACACTATCAATGGTGCCTTGAAATCTATGACCTCAACTTTTCAAAAAGACTTTTTTCAATGTTATTTTAACCGTGTAAATAAGTGTAGATAGAGGAATTAAACTGTATATTCTGGATAAATAAAATTATTTCGACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010905:ENSRNOT00000014946:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.725
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=11.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACTCAGTACCTCGCCCT
R:
GGTGGCAGGTGGGAATTGATT
Band lengths:
348-1403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]