HsaINT0077292 @ hg19
Intron Retention
Gene
ENSG00000120093 | HOXB3
Description
homeobox B3 [Source:HGNC Symbol;Acc:5114]
Coordinates
chr17:46629389-46632980:-
Coord C1 exon
chr17:46632893-46632980
Coord A exon
chr17:46629995-46632892
Coord C2 exon
chr17:46629389-46629994
Length
2898 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TCTCTTCTCTCGCCTCGCAGGTC
3' ss Score
12.91
Exon sequences
Seq C1 exon
GAGGGGAGATTTGTCGCCTGCCGCTCGCTCTGGGGCTCGATGTGAATATATATTATGTCTGCCTGTTCTCCCCTCGTCGGTGGCTAAG
Seq A exon
GTAAGCTGGACTGAAATAGGCTATCAGTTTGTGAATGGCGGAGAGTATGTCTCAATGATTTATGGCCCATATGACTCCAATCTCGGTTCAAGAAGAGTTCACAAGCTTTAAGCTTCCTTCCACGCAGCGACTCTCTCTCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCTCTCTCCCCTCTCTCTTCCTGCTTCTCTCCTCTTTTCTCCTCTCTCTCTTTTCTTTCAGCAGCCAGATCCAGGGCTGAATTTTCTCCGCGGCTGCTAAGAAAGTCTCAACCTTTCTCTGTCTTCCTTTCTTGTTATTTTTCTTTCTCCCATTAATTTTTTTAAGTCCTGGAAGATGGCCTATCCCCTCTCTCGGGGCTTCCCCAGCTATTGTTACTCTCCTGGCTCTCCCTGGGGTGTGCTTGGCAAGGTGGGGTTCTTGCGGGGGGCTCATCTCCCTTCTCCAGCGAGACCCTGGGGGGAAGCCGGCAGCCACCGTCTCCCTCCCTCCCTCCCGAGGAGCCATATGGAACCTGAATTTTTCCAACATGGAGGCAAGGGAAATAGATCTGTTTGGCTTGGTAGAGTTGTTCCCCACCCCCTCTTGTTCTGGATCCCAGATCTTGGGTCCCCTTAGCACCTTTCTCTCTTCCCACTGTCCCGTCCGCCAGGCCTCGGCGCCCTCCAACCCGGAGCCCTGCTGAGCAAAGTCCCGAAGCGGAGTTTCTAAGGCGCCTTTTAATTCGGTTACCTCCAGCTCCCAAAACTTGCTGCCGCCCGCGGGGCTCGGCCCTCGGCCGGCTGGTGTGCTGGGAACCTGCCTCCGATAACCGTTTTGGTGTCCTGATCGCTTGCTCTTCTTCGCCTCCTTGGGCCATCGTAGGTGGCTGGTAGCTTGTCGCCAGTCGCCGCGGCAGCAGCGACCGGCTGAGGCAGCCTGGCAGCAGCAGCCAGGGACTACCCGGGTGCACAAACCTTCCCAGCCCTGTCTGCACCACCGGCGGAGTCTCCATTCTTTCCTATCGCGTCTCTGGCTCCTTCGCTTTCCACACTCGCCTGGCCTCCGTCCCGCGATGGTTTGGGGTTTATTGCAAGGGGAGCGGCAGGAATTTCGGCCCCAGGCATCTAGTTAAATTATTGTTTTATTATTATTACTATCATCATCATCGTCATCATTATTATTGCTGTAACAATCAGACTAAATAAAGCCAGGGCCTAGCCAGCCAACCCCCTCCAACGTTTTTATTTCATTCTCTTCTCTATTAATAACAACCACAACTAATGCCTGTTAATTAATTCCCCCTTCAGCCAGGGCTGCTTGGAAGCTAATTTTGGTTAAATCAGCAGAGGCTAATGGTAATAATAATAAAGGGATTGGGTCAGCCTGGTCAATTGAACTCTGGTTCTCCCTGGAAGGACCTGCTGCTTTGCAGACCCATGTGTATTTCCAGAAACCAATCGGAACTCAGGGTTACACTGATTCCCTTTTGAGTATAAATCTGTGCCATGAAGAAGGGGATTTATGTGAGGGAGGGACTTTTCTTCACCTGCACTCCTTTTATTTTATTTTCCTATGTTTAGTTTTCTTTGGAGTTGAACAGCTAGGCTGAATGAGATTAAAGTTTTCCAAACACACATGGCAGTATGGAGGTTTTATGAAAAGTGATGGTGAAGAGTTGGGAGAGATGGAGGGAAAAAAATGCAGTCAGAAGTTTCAGAACAAATACACAAAATCCTATGTTAGTTTGAATCTTTATTTTTCTGGCACACTTTTAAAAGGCTGTATTAAAATAGTGATTTTTTTTTTTTGCCTCAGGGAACCTCAGTCAACAGGAATACCTCTGTTTCTAACCTAGAGAATAATATTGTTAAAATTGCTTTGTTAATTTTTTTTTCCTCAGGAATAATTTTCTCTTTTGGAAAGCACTTTCCCCGTCTCAGTAGAAAAGTCTAGCAGTTGTAACTTCTTGTTTCTTATTTGCTTTGGGGGAAATCAAAGAAAACAGACGGTGAAGGAAAGGGTGGGAAAAATTAAGTCTCATGAAAAAAAAAAAAAGAGGTCCGGGGAGAGACCTGGGCCAAATGGTCACAGCACCAACTGGCGTGGCCCAGGAAATTGAAACAATCCTGCTCCATGTGGGGGCCCCACAGGGCCACTGGCTGCCCGATCCCAGGTTTGGCTGAGCAAAGACAAGGGCTGGAGGTGGTGGTACCTGCAGCAGGGCCATGGACAGATGAGTCTCGGTTCAGCTGGCTCTTGAGGTTAAAAATCATCAGGAAGTTTCTAGGTCAGGCTGTTGTTGTCTTCCTGGTGGGAGAGTGGTGGGAAGTGGAGAGGATACCTCACAAGAGAAGCTTCTCTGCTGAACTTGCTTCTCCTGCCTGTTCTTTTAGGAGATCCTTTGGTTTTCCTTCAGGCTAGACTTTGCTTGGGCAAGAGACCTAAACCGACTTGGAAGGAGGCAAAGGCTGGAAGCATAGAAGCCTCTGGGCTCAGAGGAGGGTGTTGATGATGCTTTTATTTTGGAGTCTCCTAGTGTCCCCTCCCTTGAGCCATCCTATCCCAGAGTTGGGGAGGAGAGATAGGGAGAGAGGGACTAGGGGAGGTCAGGGGCTAGTGCACAGGCAGGAGAGAAGCAATGGCCTTTGCCATAGATTCTACATCTAGGCAGTCTTGAAAGGCATATAGTCTTTATTTATTTTTTTATTTTTTAGTGGAAATGAAAACTGGTGGGCTTTTTTTTCTCAGCATCTGCTTTGGAGATGTTGGGGAGGGGAAAAGAAAAAACCCTATTGATGTCAGTTCCCTTTTCAGTTCCTAAGATGGATTCGAGCCCCAGTCCTCTTCTCCCCCTTGTGTCTCTTCTCTCGCCTCGCAG
Seq C2 exon
GTCAGCCGCTTGGAACAGACCCCGGAGGAGGGGGGCAGAGAGGGGAGGTGGGGGGGGGGGGTCCGGCGTGTCACGTGACCCCCAGGGTTGCCAATGTCCGGTCCTGAGGGTATCAGGCCTTTCCAAGTTGCCACCCACTGCCCAGGCCTCACCCAGCGATGCAGAAAGCCACCTACTACGACAACGCCGCGGCTGCTCTCTTCGGAGGCTATTCCTCGTACCCTGGCAGCAATGGCTTCGGCTTCGATGTCCCCCCCCAACCCCCATTTCAGGCCGCCACGCACCTGGAGGGCGACTACCAGCGCTCAGCTTGCTCGCTGCAGTCCCTGGGCAACGCTGCCCCACATGCCAAGAGCAAGGAGCTCAACGGCAGCTGCATGAGGCCGGGTCTGGCCCCCGAGCCCCTGTCGGCCCCGCCTGGCTCACCCCCGCCCAGTGCCGCACCTACCAGTGCCACTAGCAACAGCAGTAATGGGGGCGGGCCCAGCAAAAGTGGTCCCCCAAAGTGCGGTCCCGGCACCAACTCCACCCTCACCAAACAGATATTCCCCTGGATGAAAGAGTCGAGGCAAACGTCCAAGCTGAAAAACAACTCCCCCGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120093-HOXB3:NM_002146:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.854
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
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)