HsaINT0077295 @ hg38
Intron Retention
Gene
ENSG00000120075 | HOXB5
Description
homeobox B5 [Source:HGNC Symbol;Acc:HGNC:5116]
Coordinates
chr17:48591257-48593961:-
Coord C1 exon
chr17:48593121-48593961
Coord A exon
chr17:48592457-48593120
Coord C2 exon
chr17:48591257-48592456
Length
664 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
CTTTCCTCTATCTGCTCCAGATA
3' ss Score
9.99
Exon sequences
Seq C1 exon
CATTGAATCGGCCCTAACGATTCTCGGATCGTCATTATTTGTAACCATAGAGCATGAATTACCTCTTGAGGTCATCAGCGAGAATTTACGACTGGTCAACAAAAGCACGTGATTCCCTAACGCCCCCCACCCCCCTTCCAACCCCCCCCCCATATTTGGCCGCATACATAGCAAAACGAAGTACAGTGCATCGCTATAATTCATTAATACATCATAAATCGTGAAGCACAGGGTTATAACGACCACGATCCACAAATCAAGCCCTCCAAAATCACCCAAATGAGCTCGTACTTTGTAAACTCCTTCTCGGGGCGTTATCCAAATGGCCCGGACTATCAGTTGCTAAATTATGGCAGTGGCAGCTCTCTGAGCGGCTCTTACAGGGATCCCGCTGCCATGCACACCGGCTCTTACGGCTACAATTACAATGGGATGGACCTCAGCGTCAACCGCTCCTCGGCCTCCTCCAGCCACTTTGGGGCGGTGGGCGAGAGCTCGCGCGCCTTCCCCGCGCCCGCCCAGGAGCCCCGCTTCAGGCAAGCGGCTTCGAGCTGCTCCCTGTCCTCGCCCGAGTCCCTGCCCTGCACCAACGGCGACAGCCACGGCGCCAAGCCCTCTGCTTCGTCCCCCTCCGACCAGGCGACCTCAGCCAGCTCCAGCGCCAATTTCACCGAAATAGACGAGGCCAGCGCGTCCTCGGAGCCTGAGGAAGCGGCAAGCCAGCTAAGCAGCCCCAGCCTAGCTCGGGCGCAGCCAGAGCCCATGGCCACCTCCACAGCCGCGCCCGAGGGGCAGACTCCGCAAATATTCCCCTGGATGAGGAAGCTTCACATCAGCCATG
Seq A exon
GTAATTCTCTCTCTCTTTTTTGTCTTCTCGGCTTTCCTTCTCTGCGTTTTGGGGTGGGATCGGGGGGACAAGGAGAGCTTGGCTTTACCCTAAATATAGATTCATTTTTCTAAGGGGGAGAAGTATCTAAGAGGGGCCTCATAGCTTCGTAGACAGAGCCAAAAAGGGTCTCTCTGTTAAGAGGGGGGTATTTTTAATAATTTGTTTCCAGCTTCGGCTTAGGTTTTTATTAGCGCAGCTGAACCAGCTTTAGGATAAAGGATGGGGTTCATATAATGTGGGGAAGGGTCCTGCTTACCCCTGAAATTTTGAGACTGTCGCTAGCAAAGAAGGGGTGAACAGTAAAAGGAGCTTTCCGGGGCAAAAGTGCAACCGCTCTCCTCCCTCCCGGGGCGAGCGGCCGCCTGAGCCCAGCCAAGGGTGAGGCACTAGGAGCGAGCAAGAGACAAAGCCGGGCGCACTGGCTGCCTGCAGAAGTGGGGGATGCAGTAGAAAGGGGTGCAGAAATCGAGCTTGAATGTGGGCATCTGGAGTAGAGAGGATTGGAGCTGTGGTGAGCTGGGTGCCGGGACGCCTGGGTCCTGCTCCCCCGCCCCCTCCCACCCAGTGCCCCCTCCCTTAACCGGAATAATGTTGCCTTGCGGCTTTCCTCTATCTGCTCCAG
Seq C2 exon
ATATGACCGGGCCGGACGGGAAAAGGGCCCGGACCGCGTATACCCGCTACCAGACCCTGGAGCTGGAAAAGGAGTTCCACTTCAACCGCTACCTGACCCGGCGACGGCGCATCGAGATCGCCCACGCACTCTGCCTGTCCGAGCGCCAGATCAAGATCTGGTTCCAGAACCGGCGCATGAAGTGGAAGAAGGACAACAAATTGAAAAGTATGAGCCTGGCTACAGCTGGCAGCGCCTTCCAGCCCTGAGCCCGCCCAGAGGAGCCCAGCGGCCCAAGAGCCCGTGCCACCCCCAGCCCTGGCCCCTCCAATCCTCCCCGCTCTGCCGCCGCCCGCTGGGGACCGGTTCCCACAAGCCTGCCTCGCCTTGTGTTACGATATTTCGTTTGGTCTTAGGTCTTCCTGTGGCTCCCTCTCTCCTGGACTGGTTATCTTGTTATTATTGTTAATAATAATTATTATTATTATTTTCCTTCCATGCTCCCAACTCCCTTCTGCTTGTCCCAAATCCGCCAGTGTTTCTGAATGTTTGTGTCTGTGGTTGCAGTCTTTCCCCCAGGAAAAAAAAAAAAAGAAATTCGCATGTTTAATGTGAACTCTCCCCTCCCCATCTGTGTTCTAACTTATTTATAAAAAGATGATCGCTGTATTTTGAGTTTCAGCTGGAAACTTCTGTAAGGGGCAGCAGTTGAGGTGGGGTAGTGCCGCAGTGGGGTCAAGCTGAGCTGGCTTCGGAGATGGAGTCCCTTTTCATTCTCCTCCTCCTCCCTCCTCACTCCCTAGGCCCAAGTCTCCTAGGGGCTTGGTCCTAGGGTGGGAAGGGGCTAGGGAGGACCAAAGGGATGGTATTGAGAAGAGAGAAAGAAGATAGTGAGATTTAAGTTCCTGCTGCCTGGGTAGGCCCCACAAGGCCTGGTCTGGGAGTATACGGAAACAAAAATGATCCTCAGTGCAAAATGTCTTGTGTATTTCTCTGTGAATCCATGGGTCTGGCTAGAGGGCCCAAAGCTTGTAAATATGGGGATAGTCTGGGTCAGACCCATCTCTCCCTTACCCATCTTGCTTCCAAGACCATTTGTAGTGAGCGAGTGGATGCTGTGCTACGTGTGAAATCTGTCTTTGCGGGGCCTGTCTCAGTGATTCGCTTTTGGTATTTGTTTGTAGCTTTCCTGGAAGTCAAATAAATGTTTCCCCCACTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120075:ENST00000239151:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.691 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=68.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCGCCAATTTCACCGAAAT
R:
CAGATCTTGATCTGGCGCTCG
Band lengths:
345-1009
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