RnoINT0048275 @ rn6
Intron Retention
Gene
ENSRNOG00000004399 | Dlx4
Description
distal-less homeobox 4 [Source:RGD Symbol;Acc:1308744]
Coordinates
chr10:82958525-82960167:-
Coord C1 exon
chr10:82959980-82960167
Coord A exon
chr10:82959680-82959979
Coord C2 exon
chr10:82958525-82959679
Length
300 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GTCCTCTTTTCCTCTCAAAGGTA
3' ss Score
9.56
Exon sequences
Seq C1 exon
AGTCAGAGAAACTGGCACTGTCCCTGGAACCCTCCCAGCCGTCCCTGACCAGGAAGCTGCGCAAGCCTAGAACCATCTACTCCAGCCTGCAGCTGCAACACCTGAACCAGCGTTTCCAGCATACCCAGTACCTGGCCCTGCCCGAGAGAGCTCAGCTGGCAGCGCAGCTTGGACTCACCCAAACCCAG
Seq A exon
GTAGGGCCAGTCCTGTCCCTGCCCAGTGCAAAGCTCCCCAGTCCCTGCTCTCTGAGAACCCACAAAGGAGTTCCATGATTTTGCTGACACAGCTCAAGAAGGAGGAGCGCCCGCAGCTGGGCCGCAGGATGAGTTGGGGGTATATATTAAAGGAGACAAGGGATGCACCCAGACAGGAAGCTGAGACTGAGGGATTCCAGAACTGAAGGGCCGGAGCCAAGGTTCCCAGGACTCACAGGTTCCTTTCCCTTTCCACACCGTTTCACAGACACTCCTGTCTGTCCTCTTTTCCTCTCAAAG
Seq C2 exon
GTAAAGATCTGGTTTCAGAACAAACGCTCCAAATATAAGAAGCTCCTGAAACAGAGCTCTGGGGAGCTGGAAGAGGACTTCTCTGGGAGACCCCCCTCCCTGTCTCCCCACTCTCTAACCCTCCCATCCATCTGGGATCTACCCAAGGCAGGCACCCTGCCTACCAGTGGCTATGACAACAGCTTTGGTACCTGGTATCAGCATCATTCCCCAGATGTGCTGGCGCTGCCTCAGAGGATGTGAGTCTGGAGGGAGGCTGGTCAGGCTTCAGCCCTCCTGTCAAGCCCAGGACCTGAGCACCTGCTCCCCTTCTGGGAGGAGAGGAAACCGGCTCCAGATGGATTTTCTCAGAAGTCAAGAAGCTGAAGGAGAAAAGGAAAAGAATGGAGTGGAAGCCTGGCTCTCCAAGCTAGAGAGCTAAACCAGGGGATTTAGACTGCCACCATCTTGCCACTCCCTCCCCCTTCAAATGACTACAGCCCCAGCACAGCCTAGGATCCAAACCAGGAAGAAAACAAGTATCATTCCTGGCTTGCACCGTGGGGGTCCAGACAGCTCTTCCATGAACAAAACTAGAAGTGGACACAGAGTCTCTGTTGTTGGCCACCATAAAGTCTCCGATTTCCATTTACTAATTATTGATGGTGGCCCAGTGGTAGAGTAAGTGCTTAACATGTAAGAGGCCCCAGCACCAAAACAAAAACATGGAAGGCAGTTGGGCCTGTGGGCAGCTCATGCATCTCTGTCCGTCCCCCCCCCCCCCCCCCCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTGCCACTGAGCCAAATCCCCAACCCCATGCATCTCTGTTTTAAATGGCTGTCTACCACCTTATCTACCCATTTGATAGTCATGGGCTCATTGTAATTCATCAGGTACATGCTAAGAGCCTAGGCCTGCTGCTCCCCATTCTTAACACCTCACAAGTTCACCTGCACATATTGTGGGAGGGGACAAACAGAACCTCTGGATCAGTGCGGGCCTAGCTGCAAAGGTGGGGTAGCCTTGGCATCTCGGCTCCTCACTGTTGCCTCTACCCAAGAAACTGCCCTGACTCACCGCTATTCTGCCCGGCATTCCCAGGGACTTGTCAGCTCTCAAATCCCAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004399:ENSRNOT00000005807:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.317 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=66.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGGACTCACCCAAACCCAG
R:
CGGTTTCCTCTCCTCCCAGAA
Band lengths:
351-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]