RnoINT0048273 @ rn6
Intron Retention
Gene
ENSRNOG00000004278 | Dlx3
Description
distal-less homeobox 3 [Source:RGD Symbol;Acc:1304875]
Coordinates
chr10:82939525-82943348:+
Coord C1 exon
chr10:82939525-82939715
Coord A exon
chr10:82939716-82941425
Coord C2 exon
chr10:82941426-82943348
Length
1710 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TCTTTCTTTCTTCTGTCCAGGTG
3' ss Score
11.17
Exon sequences
Seq C1 exon
TGTCGGTGAAAGAGGAGCCGGAAGCCGAGGTACGCATGGTGAACGGCAAGCCCAAGAAGGTCCGAAAGCCGCGAACGATCTACTCCAGCTATCAGCTGGCTGCCCTGCAGCGCCGTTTCCAGAAAGCCCAGTATCTGGCCTTGCCTGAGCGCGCCGAGCTAGCTGCACAGCTGGGCCTCACACAAACACAG
Seq A exon
GTTAGTACTGAACGCTCCAGGGTCTCTGGAGGGAGATGGGAGCATGAGGGACCTGGGGATTCCCTAGGTACCTCTGAGCCTGGCTGGCCGGTTAAACACCCCCACCCCCAGCCCTTGCCCCGCAGCCCATTGTAGGGACTCCTGCCTGCGCTATGAGTGGCTGAGTCTCAGCTTTGAAAGAAAGGGTTACAGTAGCGAGTGAGCATAGAAAGGTGCAGTGTGCATCTTTGTGAACTTACGCAACTGTGTATGTCTGTCACAGAGACATGCCCTCCCCTACACCCCAGAACTCCTAGCTCCCAAGACCCTCAGCAACGTTATAGGACGTAGGAGCCCCTGTCGCCTCTCTCCCAAGCGAAGTATGAAGTATGTGCGTGTAGGATTTACGTGTGACATTCCAGGAAATACTCACATAAAGAATAGGGTCCTTTGGGGCTGGGGATTTGGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAATAGGGTCCTTTAAGGGTTTTTTTGCAAACAGAACGCAACTATCTGTGATGGGACCCGCACGCGCGAACACACACACACACACACACACACACACACACACACACACACACACACAAAGTATGCTTGTATAAAAACGTCATGATCTTGCTTCCCACCCAAACGCCTAAGCAGAGAGGTTCTCCACTAAAAGGACCACCTAGGGATCAGAAAGTAGGAAGTCCACCCCCACCCTCTTACCTGTCTCTAAACCCCAAGCAGCCCCACAGCTCTGGGGAGGAATGTCGGGTGCCTAGCTCCCTACAGGTGTTGACAGGCTGGCTTTGGTTGCGGCTGGGCTGTGTGGGGCCTGGTCCATCGGGAATCTGGGTCACCTGGTGAGAAGCTGAATCATTGTTTGTACCAGTCATGGGGTGGAGAGAAGCAGGGGGAGGGGGAGATACCCCAAGGGAAATTTAGAGACTCAGGAATTGTGGTTCACCTGCCCCTGAGTCCCTGGGTCACCCCTAAGACCCAGTCAGAGCCTTAGGAGCCCTCCATGCCTGAGTGTTGGTGTTGTGGGTGCTTATCTGGGTGTTATCTGCATGCATTTATAGCTTTACTGTCTGGTGGCTGTGTGAGGCTGCGTGGGTATGTTGCTGAGTGGGGAGGTACCATGTGTGGGTGTGTGTTTATCCCAGTTTATATGTGAACTTCAGTGAAGGGCCTCTAATGTGGGCAAAATACCACCAACTGCTCGGTTCCTGCTCAGGGTGCCTTTTACTGAGCATTTACTATAGAGCGGACCGTTTAAGTTGTCTATGCCTTAACTTTCTTGAGTCTTATATCGACCCTTTGAGATAGGTGGTAGCGTTGGCATGGTCCCCATTTTGCAATGAGAGGAAGGTGAGGCCAGAGAGGGTATAAGTAACCTGCCTAAGGTCCCGCTTCAGAAGTGGCAAACCACCGGGCCAGCAGAATATTCCAAGCCACAGAGTTCTTCCCCAACTGGAAAAAAAGATACTGGCTTAGGTGTGAGAGCTCTGGAGTTTTGCCTAGTTCCCCCCCCCCCCCCCCCGTGAGGCTGGGTACGGCTTTGCCTTTTCCAGACTGGGCTGGGTGGAGGGGTCCTTTAGGCATGCTGAGAGGCTAACTAGTAGCTCTTTCTTTCTTCTGTCCAG
Seq C2 exon
GTGAAAATCTGGTTCCAGAACCGTCGCTCCAAGTTCAAAAAGCTCTACAAGAATGGGGAGGTGCCACTGGAACACAGTCCCAACAACAGCGATTCCATGGCCTGCAACTCACCACCATCACCGGCACTCTGGGACACATCTTCCCATTCCACTCCAGCCCCTACCCGAAATCCGCTGCCCCCACCGCTCCCATACAGTGCCTCCCCCAACTACCTGGACGACCCCACCAACTCTTGGTACCACACACAGAACCTCAGTGGACCCCACTTACAGCAGCAGCCACCTCAGCCGGCCACCCTGCACCATGCCTCCCCTGGGCCCCCGCCTAACCCTGGGGCTGTGTACTGAGTACCCACCTGGCCTGCAATCTCCCACGAAGGACCCCCCCCCCAGGACTAAGGCAGAAGGTGCCCTGTCCTAGAGACACTCAGGAATCATCGAGGGGCACAGGGGAAAGACTCTCTTCCCCCTCCCTTGTCCCTTCTTCCAGGGGCCCAAGAACCTCCAGATGAGAAATGCATGGACCAAGGATGCCCCCTTAAAACAACCTCCCTCCCCCTGCTTAGACTGGGGTGCCCTCCAGATGGAGAGGAGTTCCACCCCAGGGGGGAAAGGAAGCCCATGCTCTTTGCTCCAGAAACCCGGATTGCCTCTAGATGGCTTTTCAAATCACCTTCCAGCTTTTCAAACACAGTAGAGACCTCCAAAGTGGGAAAGCCAGAGTGTTTGCAGGTCTACCTGTGCTGGGGCACCAGGGGCCATGGATTCCAGCACTGCCAGAGCTAAAGCACCAGGGGCAACAACACCTTCTTGAGCCACTCTTTAAAGACATTGGACATACCATCACGTCTGAGCCTCAAGATGGGGGCCTGACCTAGCCCCCCACTGTTCTCCAGCCCTCATTAGGATTTGAGGGTCAAACCAAAGAAAACTCCCCTAAATGTGGGAACCTTTTGATATCCAGGGCTTTCAAGGGAAGAAGTAAAGGAGCCATCTATCTCTCTGCCCCTTCCCTGGGGAAGAGGACTGTTCATGTCTTTTCCCAAGGACCCATTTCTTCTTCCATGTACAGGACTTTGCACAACTCTGGTTTTAAAAGCTGTTGAAACCTAGGACAACAATGGGCATTGTTAACAGTTAGGACCAAAATCCACTCATCTCCGAGCGGGCAGTTCTGCTCTGCCCTGCCCCCGCTCACCCCTTCATTTTTCTCCCAGTAAGTTGGCAGTCTGGGGGGAGGGGTCAAACCCCCAACTCTCTACAGAGATATACCAGGCAAGAACAAAACCCCAAATACCCGCTTCACCGCAGCTTTGGGAACAGATTGCGTCCGCTCCCCTGCAGGATGCAAGTGAGGATCCAGGAGACAAGAGGAGGTCTAGAACTCAGTGCCTTAGGGGTAAGGCTGGCAGCTTGGGCAGCTGGTACCACTGCCTCTCCCTAGCCCAGGCATCCCCCCAAAGCTAACTTTCTTCTGCCCCCTGATGTGGTAAAACATCGAAGAAAGGAGAGGTAAAAGACTATAGTTTTATATATATATATATATATATATATATATATATATACATATATGTATATATATACTATGGGGTTTTTGTTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTTTTTTAAAGAGCAACCAAGAGAAGCAGTCTCCTCCCTTGTGGTTTCCTATTTATGTGACCCTGTTCCTCCTGGACCAATCTCCCTGTGTGTTGCAAGCAGAAAGATGGATATGGGCTCCTGCTGGATTTGGGTTTCGTGGGATGTTCAGGAGCAAGGAGAGATGTGGTGGGTCTCCGAGTCCCACCTCAAAGGGACAGGAATGAAGTCAGCTCCCACCCCTCCCCCGCCTTCCCATTTCTGCTTTCTTACTGGACCAGTCTTTATATATAATGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004278:ENSRNOT00000005797:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.878
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=65.6)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=11.2)
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:
CAAGCCCAAGAAGGTCCGAAA
R:
GTAGTTGGGGGAGGCACTGTA
Band lengths:
358-2068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]