HsaINT0077301 @ hg19
Intron Retention
Gene
ENSG00000170689 | HOXB9
Description
homeobox B9 [Source:HGNC Symbol;Acc:5120]
Coordinates
chr17:46698519-46703835:-
Coord C1 exon
chr17:46703115-46703835
Coord A exon
chr17:46700498-46703114
Coord C2 exon
chr17:46698519-46700497
Length
2617 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TATCGCTGCTTCTCTTTCAGCCA
3' ss Score
8.96
Exon sequences
Seq C1 exon
ATTTTGCAAGGAGAGCTGAGACGGGCTGCTCCACTGTACTTTGTTGGCTGAGAAGTTGAGCAGGGGGTGGGGGTGGGAGGGTGGGGGGCTGGGGGGGTCGCGTCCGAAAGCCCTCACACCGGTCCGGGTGCCACCTCTCCCTGCTTGGGCGCCGCCGCGCGAGCGCTTCCCTTCCCCCTGCAAGCGCCCGGATAATGTCTGAGAATGTCCATTTCTGGGACGCTTAGCAGCTATTATGTCGACTCGATCATAAGTCACGAGAGTGAGGACGCGCCTCCAGCCAAGTTTCCTTCTGGCCAGTACGCGAGCTCGCGGCAGCCGGGCCACGCGGAGCACCTGGAGTTCCCCTCGTGCAGCTTCCAGCCCAAAGCGCCGGTGTTCGGCGCCTCCTGGGCGCCGCTGAGCCCGCACGCGTCCGGGAGCCTGCCGTCCGTCTACCACCCTTACATCCAGCCCCAGGGCGTCCCGCCGGCCGAGAGCAGGTACCTCCGCACCTGGCTGGAGCCGGCGCCGCGCGGCGAAGCGGCCCCGGGGCAGGGCCAGGCGGCGGTGAAGGCGGAGCCGCTGCTGGGCGCGCCTGGGGAGCTGCTCAAACAGGGCACGCCCGAGTACAGTTTGGAAACTTCGGCGGGCAGGGAGGCCGTGCTGTCTAATCAAAGACCCGGCTACGGGGACAATAAAATTTGCGAAGGAAGCGAGGACAAAGAGAGGCCGGATCAAA
Seq A exon
GTAAGTTATAAAAAGTGAGGAAATACCCAGGCCGAAGGCCAGGAGGGGGGCGGGGAGGGGAAAGGCAATAAACTGCGGACAATGTGAAGGGAAACTGCGGCGGTGGCCGGAGAGCGGGCCGGGAGGAGGAGGGGAGAGGAAGGAAAGACGGAGGGAAGGGGAAAGCTGCGTGCTCTAGAAGGGGAGACTGAGGCCGCCAGAGGAGCGCTGCCCCCACTTCTCCAAGTCCTGCGGGGAACAGGGGCTCGGGGATCGACTTGCAGCTCTCTCGGCCCTCTTTCCCCCTCTCTCCCGGAGGCCCCAGCTGAAAGCCCGGCCAGAGACCGGCGACGGCCGGGAGAGGAGCTGGCGGGGGCCGGGGCCAGCGGCCAGCGAGGCCGAGAGCCGGCGAGGGCAAGGGCCGGAGCGCACTGGGCTGCCCGGGGCCGTGCGGCTGGCAGAGCTCCCCGCGCCACGCGCAGACCGTAAAAGCCGGCCAAGGGGAAGGGGGAGGGAGCTCATTAGGATTTTATTTGCGATGCAACAGCTTGGCGGAGGATTGTTCCTAGCAGATCTCGCGCTGTAGCCGCGCAGAGTCCGCAACCGGCGACAGGAGGGGCGGGGGAAGCCCAGGACGCGGTGACTGAGCCCCCTCCCCGGATGCGCCGGCCCCTCCCCGGGAGCCTTCCCTCCGGTGGCCCCTCTCCTCCTCGGCGTCCTCGCAGGGGCTACCGCTTCCTTTTCTGCGGTCCCCCGCTGCTCTCTGCGGGGCTCCCGAGCCCCAGCCCGGGCTGTCCGCCTCTTGGGGAGTCGGGGAATCGCTTCCGAATATCGGGGCATCTCGAAGGGACCCCGGGGAGAGGAGGGGTGGGGGGAAGAGAGAGTTGCAGAGAGGCGGAGAACTTTACCCTTTGTGGGTAGTTTCCCGTCACCTCCCACTCCTCAAAAGCACCCCGGCCAGAACGCCAAGTCTGGCTGATTTTCAGGAGGTGCTACTAGATGAGAAGAGAGGGTTCTCCTATTATTTATTTTTAAGGTTGAGAAGGGCTCATCGGTGAGGGAACTCAGCCTCAAACAATGACTCGCAGGCTGGTGGATCAGGTCCTCGTTTCTTACTCTTTTTGGGAAGTAGGGATGTTTTAGTCTCTCCTTGCCCTGCTAGATTTCCCATTGACGGAGTGGCCCCAGGGCCCTTTAGAGCATCCTTGCCTGCTGGAGAGTAAAGAGCAGCCCCATTCCTTGCAGGGTCCTGTCACCTCCAACCTGCCAGGTGGAATCCTAAGAGCTGGCATTTAGGGAACACATTCTTCCCCAACCCTCCCCGCACACTCCCAAACAGATCCCCCACCCTAAACCCCCAAATTCTGCCTGAAAAGCCCATTATGGCAAGGCAGCCATTTGGCTAGGATCAATTATTAACAGTTTTTTCCCTCTTTCATATTTAATGCGGCTGCGGGTCCCATCCCAGGCAATCACATTAAGGAAATAGCGCTGCAAATTGGTAAGACACGGTACTTAGTGTAGGATGAACCAAATTTTTTATATAAAAAAATCCAGTGTTTTTCACTTGGGGAGAAGGAAGCTAGTAGCTGGTGGCTGTTATTTTTAATTGGCTTAGCTTTATTTGGCAACTTTTTTGAGTTCCAGAGTAGGGGGAGAGAAGGTAAGAAGAGAAGCCTGTATATATTTTTGTTTCCTCTCTTCCACTCGGTTACCCTCTTCTCCCCTCCAGCCCCCACATAGGATCAATTAAGGCTAGGTGTGCTGTGAAGGGCTTCCTTTTACCTCCACATCACCCCTGGCTCCCCACCTTGGGACTGGAGCAATTTTATTCCCTAATTTCCCTGCACTTGCGTTAACCAAACTGTGAGCTGAGCAGGAGCTGAAAAGGAGAGAGACTATTGCAACCATAAGTTATCTGTGAGCCCCCAGTGCTCCCCTGTCCATAAGCTGGAGTTGATAAATGGTTGCAATTGCATTGCGTGTGAATTGGAGTGTGCTGGCTGTTTGTGGCTCTAAGTGCAGACCCATATTCGTGGTGTGTGGTGGTGGCAGGGGGGGAGATTTCTACGCAGACACACATGCCTGCTGCCATGTGGTCTAGAGACACAAGCTTGTTTGTGATCAAGGCAGGGGATATTGGGACTGGACTGAAGGGCTGAGAGGTCTCTTGGGGTGAAGTGACACCCCAAATGCAGTGACTGAACAGACATCTCACTTCCCCACCCAACTCCTCCTCTCACCTCCTAGAGCCAGGACCCTTCAGGTCAGCCACCCACCCCTAGTCAGCCTGGGAGTGCTGCTGGTGGGACTTCAACCATGCTGAACTCTGACCTGAGTCCTAAGCAGTTTGGACCCAAGTAGAGAAAAATTGAGAGGGAACTTGATGTAGGCAGAGCTTTGGAAGTGCTGAGGAAGCCTGGGCCCACGTTTGGCTCCATCCTTTCCACACAGCCTCTCACCTGGAGGTGTCTATAGCAATGGCTGGCCCATCTGTGACACCCTTCCTGGGAGCTTGAAGACCCAGGTGGCCTCTTCTCCAGTGCAAGATGGGGAGTGGAGACCAAGGGAGTGCCCTCTTGATCTGGGGCCCTTCACCCCCTTCCTTTCTTTGATTCTATCGCTGCTTCTCTTTCAG
Seq C2 exon
CCAACCCCTCCGCCAACTGGCTGCACGCTCGCTCTTCCCGGAAAAAGCGCTGTCCCTACACCAAATACCAGACGCTGGAGCTAGAGAAGGAGTTTCTGTTCAATATGTACCTCACCAGGGACCGTAGGCACGAAGTGGCCAGACTCCTCAATCTGAGTGAGAGACAAGTCAAAATCTGGTTTCAGAACCGGCGGATGAAAATGAAGAAAATGAATAAGGAGCAGGGCAAAGAGTAAAGATTAAAGATTACCCCCAGTCCTCCCTAGCTCTTCCCCATCTCACTCTTAGTTATGTGACGACTGCAAAGCCAGTGCTGTCTGGGATGTATTCAAGTGAATGGGGAAGGGAGTCTCTCTTCCAAGTCCTTTATCTGCACCTAGAACCTCCCTCCTTTCCTTTGCCCTTACCTGTCTCTCTCTTCTCTCTAGGTGTCAGGAGAAAGTTTTGTTGATTTAGAAGATAGAAATAGTTGGTTCCTAAGAATGTGATGGGCCACAAGGAAAGAGAGACCCCAGTCAAGCTCCTAGTATGCCCTGTAATTTTTCTGGGAAGTCCTAGCCCCTCACTTCCAGCTTGCCTGTTTCTTCTCTACACCCACCCAAAAGTCACCCAGGGACACTCCAACTCTACACAGCTCAGCAGACATCCACACACAGTAATGGGGTGAGCTCACAACCACCATTCAGTCAAGTGAGGTGACACTCCAGTTGCAGACCATCGCACACCAAATTTGGCAAAACAGCCCTCAGACTGTCAGGCAAGCCCGGGTTCTACCCCTAATGCAAATACCCACCAGGGAGATGTCTAGAGGCAGACTCCTGAGTGAGGTGTTGCAGCCCAAAGGCTGCAGCATTGCCATACCATTCCCATGGAGTTGCCAACTATTCTCAGGCCAAGGGCCATGGGGAAGATGGAGCAAACCTAGCCCCCAAGCCGGTGGGCTAGAAAGTACAAGAAAAGGCAGCACGTGGTTTTATGAAGCTATCTTAGGTGGAGCTACTCCCCACCTCCCACCAACATATACATTTTGTTGCAGGAAATGTTTAATTCCGCATGATGTTTCCCTCTCCTTCCAACAAAAGAAGGTCAAACTGTGGGTCGTAGAGCCTTGACAATGTTGTCCTCCTGTTCATCTGTGCACCACTTGACAGACTGTAGCTTCTCTTGCTCTCGACCGGCCCTGCATTCTTCCGCACCCTCCCTAGCTCTGAAATCAACTCTCTTCGGTCGTATCCACCTTGCACCCGCAAGTCAAGCCGCCCCTTGTAGAAAAATCCCTCCACCTTCCGTTCCCCGCTAGGTCAACCCCACTGTAGACAGGAAAGCCAGGCCAGGAGAGTCCGAATGAGAATTTATTGTGAATCGATTCCCAAGCTCCCTTCCGGGACAAGTGGTCTGGGACAGGGAGGAGCAACGGCCCCAGCGCGCAACGCTCTGCGCGTTCCTCCGAATCCCGTCGGCTTCTCGACCCACGCAGAGAAGCCCCGGGCTTGGCGGCTCTAGCCCCAGCGCCAAAGGAGACCCGCCCCAGGGCCGGGCTTGGCCTCCTGCTTCATGGGCCTGGATGCAGATCTGCGTGGCTGGTGCGTGCGCGCGCTTCTGGGAAACAGTCCCGCGTGCAAAGGAAAGGGGCAAAATGGCACCTAAGCATCAGATGGAAGCTTACTCTCTGCTTCCGTTCCTCCCCCTGCTCCCCTACTTCTCAGTCCCCTTCAATTTGTAGACTCTTGCTCCTGCTTCTCCTGATCCTGCAAGGGGACATTCCAGTAGAAGTTTTTTGCTTTGTCGGTGGCTGTCGTGAAATTGTGCTTGTGTTTCGTGATTTCTTTGGGGGTGATTGTCTCGCTTGTTTTCAGTTGTCGATTATATGGGAGGGTTCTGGGTGGGAGTGGGGAGGGCGAGGGGCCTAGAGCTCTAATTGTTTGTTTTGGAAGAAAAAAAGAAAAAGAACAAAAAATATATATCACTCTAGAAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170689-HOXB9:NM_024017:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.709 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF046178=Hox9_act=WD(100=99.4)
A:
NA
C2:
PF0004624=Homeobox=WD(100=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)