RnoINT0048269 @ rn6
Intron Retention
Gene
ENSRNOG00000001520 | Dlx1
Description
distal-less homeobox 1 [Source:RGD Symbol;Acc:1309593]
Coordinates
chr3:58166447-58169521:+
Coord C1 exon
chr3:58166447-58166646
Coord A exon
chr3:58166647-58167826
Coord C2 exon
chr3:58167827-58169521
Length
1180 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
GTTGTCGCCCGATCCTGCAGGTC
3' ss Score
8.89
Exon sequences
Seq C1 exon
GGGCGGACTCCGAGAAGAGCACCGTGGTGGAAGGCGGAGAAGTGCGCTTTAACGGCAAAGGGAAAAAGATCCGTAAACCCAGGACAATTTATTCCAGTTTGCAGTTGCAGGCTTTGAACCGGAGGTTCCAACAAACTCAGTACCTAGCTCTGCCTGAGAGGGCGGAGCTGGCGGCCTCCTTGGGACTCACACAGACTCAG
Seq A exon
GTACCTGGCCGCTCCGCCAAACAGGCTTTCGGAGCTGGGCTTGAGCCCCAGGCTTAAAATTTTTTTTTTGTTCGCTGGGCCTCTGGTTCTAGGAGTGACTGTGCCCCCACCCCCACCTCCGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTCCACCTCTGACTTTCAGCGTCTTCTCTTCCTCCCTCAAACTGCCCTAGCTCGGACCCTACTCTGACCTGCAGGCTACCTGGTCTTCTGTCCCTGGACTTCTGATCAGGCAGGGAACTGGAAGGATTTCCCCAGACGTTTTGTTTGGTGATTCTGAGGTCACACGTGCCTGAACAACTGGAACAATAGAGGGGGGATTTAATCTTCCTTTGCCTTTAAAGTGTGTAACTAATCACTTGGATCCTGGGCCTAAGCCTGCTTCCTCCACCTCCTTCTTCTTCGTGTGAGGTGGCAGAGGCGGATCCTTCCCTCTGGCCCTTCACTTCCCAAGTTCCAGATCCTTAGAAGGAAAAAAAGAGTTTTTTTTTTCTTCTTGCGTTTCTCTAAGACCCTGAACAATTCGTAGGCATTCGAACCGGCGCTGATACCGGTTTCCAAAGTCTGTCTCTAGATTTAAATTGGAACTGGGGAAAGCAAATACACCTACGGGGGCTAGGGGGGAGTTGGACTGAGTCTAAAGAGTTTAACAAAGACGCTGCGGCTTCTTCCATCAGTCCTTCAACTTATCTAGAGGCAGAAAGTTCGGTGCAAAGGATAGGTGCTCTGATTTTAATAAATGCCCCCCATTCCTATCTAGGTTTTAAATTTTCTTTATTGATATTGCATTGTTCTGCACGAGGTCTTTCATAAACATCAGCCGGTGTGGCACCGACTCATTTGCAAGTCAAGGCCTGGGTCTCCTCCCCTGTTTTCTTATCCCGGTCTCTGAGAGCTACTCTCAAGGAAACCAGCGGCGGCGGGACCCGGGGCTCAGTTTTCTGGCCTTTGGCGCTCATGGGGGTGTGGGATGGCGGTGGTCTCTGCCCCTCTATCCTGGAGCTGTCAGCTTTTCCAAAGCAAGGAGGGAGGGTATTGTTTGCCACCAGCCCCTTTTCTCCACCCTAGAGCTGGGTAGGCTCAGTGGTCATAGTCCAGTCACGTTGTCGCCCGATCCTGCAG
Seq C2 exon
GTCAAGATATGGTTCCAGAACAAACGCTCCAAGTTCAAGAAGCTGATGAAGCAAGGCGGGGCAGCTCTGGAGGGCAGCGCGCTGGCGAATGGCAGGGCCTTGTCTGCCGGCTCCCCACCGGTACCACCCGGCTGGAATCCGAATTCCTCCTCTGGGAAGGGCTCCGGCAGCAGCGCTGGCTCCTACGTCCCCAGCTACACGTCGTGGTATCCCTCAGCGCACCAAGAAGCTATGCAGCAGCCTCAACTGATGTGAGGTTATCAGTTCGCACTCACCCGCTTCCTGCCCATCTCCCTTGGCCCGGCCCCTCCCGCCTCCAGGTTCATCCACTCATTCGCACGCCCTGGGCCGGAAGGAGAAGGGCCCAAGGGCGAGGGCGGGGGACGTAAAAATAAAAGAAAAAGGAACAGTGAAGGCTTGCTGCCTCCTCGGAGCCCCTAAAAATCTGGCCCAGCGACTTTTCAGCTCTGGGCTTGAACCTGGTTTGGGCCACGGTGACAGCAGAGTGACCTCAAAGCGCAGGCACAACCACTGGAGACAGCCAGTGCAACAAGACAAGCCGCTGGACCCGACCAGACTCTCAGCTTTGTGAGACTATCAGGAAAAAAAAATTACGTAGGAGGGGGAAATATGCTCTTTTTTCGGTTCTGTCCGTCTTTGTCTCCTTTTTGCACCGTCTGTGCGCCGAAGTCAAGGTCCTCGTGTGTCTGCTGTCCTCTCCAAAAAGTCACCAGATCTGAGCCACACTGGTCTGCCGGCAGCCCATCACGAACCCTGGAACGCTTTTTTTCTGAATGGTCTTCTTCCGGGCCCTGCTTCACCATCTGTGTAGCTTGTTTGGGCAATGGGGGGAATCGGAGGGAGGGGGGTTAATTTATTGAAAAACAGACGCTGAGTGTTGGCCAATTCCAAGTTCTCTGAGACATGGAGTGGGCACTGTCCAAACACACTATTTACCTTAAACACACCAGAAGAGGGAACAAGGATGGGATGGTGGCTTTTTAAGGTACCTGGTAACTTTTGTACTTTGTTGGAATGGAGAAGTGGAGGCAGAGTGATTTGCATTTTACACGACCCACATGATTAAAAAATAACAAAAGAAATAGTGAAGTAAGGAAAGATATGTCAAGCCAACAGAATGTTGTCAAAAACGTTTGGACAAGAACACCCGGCCAAGAAGAAAAAGCATACTTTGGGCAGCAAGAGAGAGGACCAAGTGGGTTTTGGAGAGAAAATAATTTGTCCTGTGAAAGCACCCCAATTCCAGGTCGCTTGAAAGTCAGACACAAGCAGCTTTAAATGATCCCCAGTGGCTCGACCACAGAACACAAGTCATCACCCTGAACGCACAGCCTCTGGTGCAGGACCTAATCGTTGTACATATTATTATTGTTATTGTTGTTATTAATTATTATTATTGTTCTGTAAACACGTTGCACAAGCTTAGCCTCTTTCCGTTCCGTCGTGTGTGGCTGTAAACCCCAATGCTTTGTGAAAATGAGAATCTTGACATTTTACTTGTGAAATTTGGAAAATGTGACCGATTGAAATCAACCGTGTTTTGTGTTCTCTATGTCAAAGTTTAGTTTTATATTGAGAATGTTAACTTATTGCTTTGTATCTCGGGGAGTGGGGGAACTTTGTAAATAAGTTATAAAGTTTCTTTGAGACAGTAAAATTATGGTTTCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001520:ENSRNOT00000002078:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.358 A=NA C2=0.512
Domain overlap (PFAM):
C1:
PF043607=Serglycin=FE(39.8=100),PF0004624=Homeobox=PU(73.7=62.7)
A:
NA
C2:
PF043607=Serglycin=PD(44.6=87.1),PF0004624=Homeobox=PD(22.8=15.3)
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:
TCCTTGGGACTCACACAGACT
R:
TGAGTGGATGAACCTGGAGGC
Band lengths:
357-1537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]