DreINT0078833 @ danRer10
Intron Retention
Gene
ENSDARG00000056030 | hoxb7a
Description
homeobox B7a [Source:ZFIN;Acc:ZDB-GENE-000329-2]
Coordinates
chr3:23561299-23565432:+
Coord C1 exon
chr3:23561299-23561722
Coord A exon
chr3:23561723-23564953
Coord C2 exon
chr3:23564954-23565432
Length
3231 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TCATTCTGCGCTTTTCACAGGTG
3' ss Score
10.08
Exon sequences
Seq C1 exon
ATGAGTTCATTGTATTATGCGAACGCGCTGTTTTCCAAATACCAAGTGGCGAGTTCAGCCTTCTCTACTGGCGTGTTTCCCGAGCAAACTTCTTGCGCCTTTTCGTGCAGTTCGCAGCGGGCCAGCGGCTACGGCTCGGCTTCAACCGGTGCACCGGTCTCTTCATCATCTTCTGTCTCCCTGCCGAGCATGTACACTAACGGTACTAGTCTTTCCAGTCATACTCAAGGCATGTACCCCACTGCGTATGAGCTGGGAGCTGTCTCTTTGAACATGCACAGCTCTCTGTTTGACCATCCGAATCTACCCATGGTGAGCGCTGGCGATCTCTGTAAAGCGCAAAGCAGTGGCAAGGAAGAGCAGAGGGGCTACCATCAAAACAACGAAAACAACCTCCGAATCTACCCGTGGATGAGGAGCACAG
Seq A exon
GTCTGTGAAAACTAAACGTTTCTTAAGGACAGGGGTGTGCGTCTGTGTATGTAGAGGGGGAGGGAGACAGGTTAAGGGGAGCGACCAAGTCATTTCTGAAAGTGTTCTTTCCTCAAATCTTTTTATGACTAATTAGTCACCATAATTCAAGATCCCTTGTACGTAGTATTCAGCTTTTTGTGGAAAAAAGAGGCGGTGGTGTGAGAGGCGTGGGTGAATTATGTTTAGCTTTAACAAATAACCAAAATACTGCTGCGATTGTACGTCATGTCATCATGGTTGGATGTTTTGCTGCGTGTCCGGATGGATCCAAGTTAGTATGTTCTGTCATTAAAAATCCTTACATTTTCGATATAGAGGGCGGAGCCCTGCGTTTCTAGGGTATGTTAATGCTGGGTGGACCCTTGTTTTAACTTACTGAGAGTAATTCAACTATCTCTGCGTGGGCATGCGTCTGTTTATTATATGTACATGTATGTGCTTGTGCATATGGGCATGTGCTAGAAAATAAAACATACAATTCATGAGCTTAGGCCAGTTCCATTGCTAAAATATTTGCTTAAATAGGGGGTTTATCAAACCGGCTCCTTTTCGTAATAGCACTTGCACACGTTGAAACCACAAGTCCCAGCTGATAAATTGAAAAAGAGCAAGACATGTTATCTCTTAATGATTTTCTGCGGCCCCTCAAGGAACTTCCCGCGAGCACCAACGTTCCTATCAGTCAACTGTCAACCCAGGGCGCTTCTTCTCTTGTTAGCTCCTAGTGTAAAAATACAACAACATAAATAGTTTTGAAACAGATACCTCATTAGCAAAGTTGTTGACATTTGCTGGAAGATAGCCTTTGCCTGCCGAAGGTGTATACGTTTTCGCTGTCTGTTGAAGATTTGTGTGAAATGCCAGTCATTTTGAAAGAAATGTATGTCTCATAATCAACCTATGACTCCAATACAAAAAAAAAATAAAAATAAAAAAAATAAAAATTTACATTATTTTAATCCTAACATTAGCGGCGGCTATTCTGCTTTTGAAAATGTAATTATTGTTATTATTGTTGAATTATTATAATTTTTAACTTTCAAAAAGGTCAAATGTTCATATACTTTAAACAGCACTGTTATAAATTATGCTATTTTTATTGTTTATTACTATTTTTTAAAGATTTTTAAAAGACGATTATTCCACTAACATCACGTCAAACCAGCTGTAAAGATTGCATATTTGGTCTTATAGTGCATCAAAAACTGAATTAAATAAAATCAGGCCCTACAATAAACATCCGCGAGTACGAACACATGTAATCAGTCTTCTATTTATTTCTATTTTTTTTAAACCTCAGACATCTACACGTCACGTATATATACTATAAGCCCTAGCTCCTAACCACTGGCTTTCATGCTTTTACTTATAAAGGCCAGCTGCCATTTCGTGCTCTCGTTTGATATTTCACATAGATGGGCTCTGTCTTTCTCTTTATTTCTCTTCCACTATTCACAAACAGACACATTCAGGCAGAGGAGATGAAATTCTCTTTCCAATGTCTATCATTCATACTGTGCATGTCAGGGACCCTGAACAGTGACCAAGTACAATGCTCGTCCTTGTTTTAACTTGTGTAAAACCGTTTCGTTCTGTGAAGACACAAAATCTATGCACTTAATTTGTATCCCTTTAAGAAGGAAAGAGCGGTATCATTTCAGCACGACGCTTATATTTTTGCTCTGTTTTTTTTCTTGTTTTTTATTTTTTCCCAAATTCTTTAGGCATTTGCACAGTTTGTGCATGACTAGTATCAACAAGGAGTGACACGACGTGGCAGACAAGACGGAAGTAAGATACAAACGACTAAATAGTGCAATAAAAAAGTTCAAAAAGCACACGAGCTCAAAAGCGGCCCCCATTTGTCGACAGTCTGCTGGAAACGGAAATGCAGGGACAGCATAAAGTCACTGACCGTGCATGGGCAAGGTTGTGAAAGTCTAGTTAGATTTTTTTTCCTTTAAACCTGCAGCTAAAAAGATGGATATTTTACGAAGGTGGCTTCTTTATCTAAATGGATAGATGAACACTTCAGCGCTTATGTGTACGGGAACTAACTAGATCCTGTTGTTGACTTTGGTCATGTTTAGAAGGAAGTCTGAACGCCAGAGCTCCATTAGAGTCACGGGAGAGTGCAAGCCAGAGAATACACGTACAGCAGGGGTATTTGTGTACTATAAATTTGCTTTTGTATTACATTCCTCTTTCATATTTAAATTGCATTTTTATCTTGTAAAGTTTTGATTTTGTTTGGCTTATGTCTCTTAATCGTAATGCATGCAATAGAGTTAAAACGGTTGCGTAAATTGCTTGTGTTGTTGCAAACTGCAAGATTTGGGTAATTTATTATTCCATTTATTTTACTAAAGTTTATGTAATCCCACAGTAAGAAATACGTTTGCAAAAATAATTTAAAAATGTAAAAATTATAATTAAGACGGGCACTGCTTTATTTCGGATAGGCACAGTGCAAAAGAAGAACAACAAGAAAACACGAATTAATCGTATCTCATATTTAAAGTCACTAATCGTAATCTAAATAAAATGTATCTAAAAAATAAAATTGTAAATATTATAATCAAGGCGGCCACTGCTTTATTTCTGATAGCCAATGTGCAAATAAGCAGACAAAAAGAAAACACTAATAAATCGTATCTCATATTTACAATCACTAATCGTAATCTCTAAAAATGTCTTTATAATCCCTGGGACAATAAAACAAATACAATATAAGTCATTAATACACCTATAAGAATTAAGCCTAATGCCTTTTGACAAATACAATAGCTACATATAGGCTAGGGCCTACTGGAAATGTTCTTTTTTTTGTTCATTTTCTTTAGCTTTGCTTAAGTTATATCAGTAATTATATCATATTCGATGATTTTAACAAATCAGTAATTTTTGAAAACCAGTGTCCTAAATCAGAATTTACATTATGACTGGTTTGATTTTAACTATCGAAAAATATATGAGCGTTTCTCAATATTTATTTTCCTTACTAGTTTTGCTGGCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTTTTTTTTTTAATCAAGTGTTATGCTTTCTGAACCTCATTCTGCGCTTTTCACAG
Seq C2 exon
GTGCTGACCGGAAAAGAGGCCGTCAGACCTATTCCCGCTACCAAACATTAGAGCTGGAGAAAGAGTTTCACTTCAACCGTTACCTTTCAAGACGGCGGCGTATCGAGATAGCACACGCCCTGTGCTTAACCGAGCGCCAGATCAAAATTTGGTTTCAAAACAGGAGAATGAAATGGAAGAAAGAGAACAAATCAACGGACCGCTGCTCGCCTGCTGCTGATCAAATTGGAGGCGACGAGGAAGAAGAAGATGATGAGTAGCAACGCAAGTTGAAGACATAATAAGACTATACTAAAATATTATTGATTTGACTTGCTTTAATTCGGGATACACTGAATAAAAAAGTTGATACTTACAATACTGTAGGCAACGTGTCTTTATCGTCTATGTAACTTATGTTAGAGATGTTAATGTGCTAAACTATTAAATATAATACTACGAACTATTTTAAAACATTTTAATATAGATGTATAAACTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056030:ENSDART00000078453:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.363
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=65.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]