DreINT0057762 @ danRer10
Intron Retention
Gene
ENSDARG00000014626 | dlx3b
Description
distal-less homeobox 3b [Source:ZFIN;Acc:ZDB-GENE-980526-280]
Coordinates
chr12:5674641-5676963:+
Coord C1 exon
chr12:5674641-5674825
Coord A exon
chr12:5674826-5676039
Coord C2 exon
chr12:5676040-5676963
Length
1214 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
TTGTTTTATTTTCCAAACAGGTG
3' ss Score
11.28
Exon sequences
Seq C1 exon
TCAAAGAGGAACCAGAGACTGAAGTGCGGATGGTAAACGGAAAACCCAAGAAAATTCGCAAGCCGCGCACCATTTACTCGAGTTACCAGCTCGCCGCGCTCCAGCGCCGCTTCCAGAAAGCGCAGTATCTGGCGCTGCCGGAGAGAGCTGAACTCGCCGCACAGCTGGGGCTCACACAGACACAG
Seq A exon
GTACACCTGGAGATCACATTCATTTACAACACTGCCACTTGGCATTGCGTTAACAGCTTAAAGCGATTCCTTGCACTTCTATCGCTGACACTGAACACACTGAGATAAGGATAAGCAGCAATCTTATCAGGTCATAAAAAGACTGCTCATGTGTTGAAATGTCATTGCCCGCAATTCTCACCTCTTTAATTAATTTATTAATTGTGTAATTAATAAATTAATTAAAATAACAATCATTATTTATTTGCAGTGTTTTGTAAAGAAAGTAATTGTTCTTCGCTTTAATATTTTCTACAAGTTATTATAGCAGTTGAAGATTTAATAAGCCATCACGAATTGACAGCTTATATAAAGGAATTGTAAGGGCAATATTTATACTGCAGAAATTATTTAGTCGTTGTTTTCGAATAACATGTTTATTTTAATTATATAGCATTTAGCAAATTTCGCCTACAGTTTTAGTTAGAGTGCAAATTAAACAAAACAAATTTTAAATATTCCGTTGTAATAATTACACTGGAAAAAATGAATAATTGGATTTACTATTTTTTGGGGGGTTAGTGGTTGCAAACAATTTATATGGACTGAATTTAAAGAAACGAATTAAAGGTAGTAATGTTCAACTAAATCTGTTTGTTTAAATTCAGCCCATATAAATTGTTTGCAATCGCTTACCTTAAAAAATAGTCAATCAAATAAATCCTGCTTTTTAGTGAGGCATTGTCGGCTTTATAAAGGATTTTAAAAGTCTACAAAATAAAATAAATGTAGCTAATCTAAATGCAAAAAAACAAAAAAACAAACAAACAAAAAAAACAATTTAGTGTTTAAATGTTTGTCATGTATTAGCAATCTGGAAATCTATGTGTACTTTATGCACAATAGGTCTAAATTGCCCGAAATATTGAAAGCAGGTGAACAGCTTTGTTTAGTTAACTGCTTTGACATTGTTTCTCTGGTCTATTCTAATGGCCGACAGGTGAAAATATGTGCTTTGATTTCTATTAAACTGTATTATCAAACCCTGCGCTTTGTTTAAAAAAATAGGTTATATTTAGCAGGATAAGCACTTATTACAACAATTTCAAAATTTAACTTTGGCATCATTTAGTTTTTGTTTTTTACATTAGGGTTGCAGTTTTACTTAGTTGCTTCTTTTTAACGGACTTAATGTTGTTTAAAATAAACTGAACGTTGTTTTATTTTCCAAACAG
Seq C2 exon
GTGAAAATCTGGTTCCAGAACCGGAGATCCAAGTTCAAGAAGCTTTACAAGAACGGCGAGGTTCCGCTAGAGCACAGCCCGAACGCCAGCGACTCCATGGCCTGCAACTCGCCTCCATCCCCGGCTGTTTGGGACAATAACGCGCACTCTAGCCAGGTCAACCGGGGGCAGATCCCCCAGCCACCCCTCAGTTCCACACCCCCCTACATGGAAGATTACAGCAATCACTGGTACCAGCAGGGATCACATTTACAGCATCCAGTGCACCACCCGGGACCACCGCAGAGCGTGGGGGCCGTGTATTAACAGACACTGATGGAAGAGTTTAATATAAGCGCAAAAAGACTTTTGGAAAAACTCCGCAGAAATAAGCTGACAGATACTCCGCGAGTATCTAGAGTGGAACAGCAAACTTCTGGACTGTTTGAACGCATATCTGTTGATATGAATGCTTTGTGTTAAAATAATAATAATAGTATAATAATAAATAATTGTTTCAATGTGTCCCGGCTACTCAGACCTATTTCACATGCACATAGGTGTAGGTTAAACGATGTAAAGGAAGTTTAGAGTGGTTTTAAATTATTATGTTGTATGACTTCCTTTATCTTCATGTTTTGCTCATTAATAGGTGAATATTAAAAATGTTTTAAAGAATGATTGAACCCCAAATTGTGTTGTTATCAGCCACGTACGCCACCCACAATGTGGGCTGGAGTGGCGCGCGCTTCACAGACTCAGGACATAAGTTATAGACTGTACAAAATGTTGAAAGCTGTACATAAGTGTTTAAATAAAGCAGAACCACTAAATTCGTGTTACTTCAACAGATAGAGACTGCACGGTGGTGCTCGAACCATTTTATATTCCTGTAAGTAGTTTTATTGTTATTCTGTCAAACCGAATAAATGCAAAATGAAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014626:ENSDART00000017191:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.822
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=12.7)
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:
GAACCAGAGACTGAAGTGCGG
R:
CCGGTTGACCTGGCTAGAGT
Band lengths:
342-1556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]