HsaINT0077299 @ hg19
Intron Retention
Gene
ENSG00000120087 | HOXB7
Description
homeobox B7 [Source:HGNC Symbol;Acc:5118]
Coordinates
chr17:46684595-46688383:-
Coord C1 exon
chr17:46687881-46688383
Coord A exon
chr17:46685458-46687880
Coord C2 exon
chr17:46684595-46685457
Length
2423 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
CCTCTGAATACTGTGTGCAGGAA
3' ss Score
5.11
Exon sequences
Seq C1 exon
GGTCCTTTTTGGTGTAAATCTGGACTCTAATTCTGTAATATATCAAGGAATCTCGTAAAACCGACACTAAAACGTCCCTGCCTACAAATCATCCGGCCAAATTATGAGTTCATTGTATTATGCGAATACTTTATTTTCTAAATATCCAGCCTCAAGTTCGGTTTTCGCTACCGGAGCCTTCCCAGAACAAACTTCTTGTGCGTTTGCTTCCAACCCCCAGCGCCCGGGCTATGGAGCGGGTTCGGGCGCTTCCTTCGCCGCCTCGATGCAGGGCTTGTACCCCGGCGGGGGGGGCATGGCGGGCCAGAGCGCGGCCGGCGTCTACGCGGCCGGCTATGGGCTCGAGCCGAGTTCCTTCAACATGCACTGCGCGCCCTTTGAGCAGAACCTCTCCGGGGTGTGTCCCGGCGACTCCGCCAAGGCGGCGGGCGCCAAGGAGCAGAGGGACTCGGACTTGGCGGCCGAGAGTAACTTCCGGATCTACCCCTGGATGCGAAGCTCAG
Seq A exon
GTAACGCCGCGCACCGAGCTGTCCTGAGCCCCAGGGGCCGGGGCACATTACCCTGAAGGCGCCTCCTTCCCGGCTGGGCGCCCCTTTCCGCGTCCAGAGTGCTCCCAGCCGGAGGTCGGCCCTGGAAGGCTGCACCCACTGGGCCGCGACCCAGCAGGCCATCCCCGCCCCCATATTTGCTCGGTGCTCTCAGGCTCGCTCTGCTTCCCGGCGGATCTCTCTTCGCCGGCACCACGGCGCTGCGAGCCCCCAGCCCGCCCCCACCCTTCCTCTCGGCCTTTTAGCTTTAAATATTTATCAGCAGCGCCGGCACGGGCTGGAGACGAGGCCGTTTGTCTTGCGGAGGAAGGCCGGTGTTTGCAGAGAATAGCCATTAGGGTCTCCCCCTTCTCCCCCCTTCCCAGCTAAGGATCTCAGCCCTGGGTGTGTCCCCCTGCCCCACTCGGATAAGGTATGGGGGAGGGGGCCATAGCGCTAAGCAATTCTCCCCTCCCCCTTCCTCTCCAGCCAACCCCGCTCCCCCATTATTCCCATCAGGACAATTAGAGGTGGGCTCTAGAGGCCTGGCGGGAGGAGAAAAGGACCCAGCCAGGGACACAGAGCTAGAGAGGCAGGTGGAGGGAGGGGGCTGAGGCCAAAGGAGATGATCCTCCTGATCCCAGTGAACCTGGGTGGGGGAGTGGAACAGGAGAACTAGAAAGGGGCAGAGGCTTCATGGGAGTGCAGCTGGCTTCCTGAGGTGCTCTTCCTAGGGCTCCTAGGAACCCCTAAAGAACTGGCCAAGTTTGGAGGTGTCATTCCAGATAAGTGACCCTTTTCTTGGGGGAGGGGCTAGGACTCTCTGGAGCCAATTCAAAAATTAGAGAGTGCAGTTCACCTAGCCAGCTGCTGCAGAACCCCAAGAGGCTGAGGTTCCATGGGGTCCCTGCCGAGTCTGACCCAGACATCCTTTTCTGCACTGTTCCAAAGCAGACGAACTTAGGGGCTAGCCCCAAAGTCCAGAAGACCCAAGACTCATGGTCAGAGGCACCCAACCCAGCAATGGTCAGGGGCCAGAAGCAGCCCAGCTCTCATACCATCAGTATTAGTGGTTATAGGTCCCATTACCTGCTCCATAGTTTAACTGCCTTTCCAGTTGATTTATCAAAGCCCCATTTTTTCTGCTCATCAGCATTTCAGCTTGGCTTTTATCTGACTTGAAACTAGGGCCCCTAGCCCCTCCTCCCTTGTCTCCTTCCCAGGAGGGCTGACATCAGCACCTCTTTAAAGTCTCCTCAGGTTCTGGTCCTAATGCAGAAGTTCCCCTCTACCCTTCAGTCCCCACCACCCAGATACTCCATGTTCCATCCTATCCCAGGCTGCTGTCTCTCCTTTTCCCCTGTGCATTCCTGGAGGCCCAAGGATTGCTTTAGAGAGCTGGGCTGTCTAGGCAAGCAGGCAAGCAGGACAGCCTGGCCCTGGCTGAAGCTTAGCCACTCACTGGAAAAGAATCATCAGAGGGTCACTGCTGTCAGACCAACTCTTTGCTCCAAGGAAATCTGCAAATTCTTACCTTCTCATTCCACAACATGCTGGGGATGAGTTGGGGGGACTGGGCCTTTGAGGCCCCTTTGTCTCCTTTTCTTCTTGGGAAACGTTCTTAAGCTAGGCCTGGCGCCCCACTCCAGGGTCACTTGCATGGTTTCTCTTGGTCTCTACTGGAAAGACCATCAGATCAGCATTCAGAAAAGGGGGTTTAGGGTCCTTGACCCCAGAGAGTGAAAGGAGGATTAACCTCCCCTCATCCCACTTGCACCCCTTAGGTGCAGAGCCTTTAAGAGCCAGCAGATTACTTTCCTGGGTTCAGAAGCTCCAGGCTAAAAAAGACTTCTTGGATGAAAAATGGGAATGTTTGCTTTGAGAAGCCTGTAGAAAGTTCAGCAATTAGGGGAGTTTGCAGCTGGAGTAAGGGCTGGGGTATGAAAAGCCAGAATTTGGTTTAGTGGGAAAATGGGCTTCTTTGCCCATCGCCCATTGACTTCAAATCACATACACGGTATAAGAGGGAGGTGGCCACTCTCTTGGCGTTTCCTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTTTGTCGCCCAGACTGGAGTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCTGCCTCCCGGGTTCACGCCATTCTTCTGCCTCAGCCTCCTGAGTAGTTGGGACTACAGGCGCCCGCCACCACGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACTGTGTTAGCCAGGTTGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGTCTCCCAAAGTGCTGGGATTACAGGTTTGAGCCCACCGCGCCCGGCCGGCGTTTTCTTTACTCACTGATTTTCCTCTGAATACTGTGTGCAG
Seq C2 exon
GAACTGACCGCAAACGAGGCCGCCAGACCTACACCCGCTACCAGACCCTGGAGCTGGAGAAAGAATTTCACTACAATCGCTACCTGACGCGGCGGCGGCGCATCGAGATCGCGCACACGCTCTGCCTCACGGAAAGACAGATCAAGATTTGGTTTCAGAACCGGCGCATGAAGTGGAAAAAGGAGAACAAGACCGCGGGCCCGGGGACCACCGGCCAAGACAGGGCTGAAGCAGAGGAGGAAGAGGAAGAGTGAGGGATGGAGAAAGGGCAGAGGAAGAGACATGAGAAAGGGAGAGGAAGAGAAGCCCAGCTCTGGGAACTGAATCAGGAAACTCAAATCGAATAGGGAAGTAAAAAAACAAAACAAAAAACAAAAAAAACAAAAAAAAAACCCTATTTAAATGAAAGGAGTTTAAAAACATTTTTTAAGGAGGGAGAAAGGAGAAATTTTGGTTTTTCAACACTGAAAAAATACTACCTATAGGAAAGTCTGTCAGGTTTGGTTTTTTTGTACAATATGAAAAGGATATTATCTACCTGTTCTGTAGCTTTCTGGAATTTACCTCCCCTTTTCTATGTTGCTATTGTAAGGTCTTTGTAAAATCTTGCAGTTTTGTAAGCCCTCTTTAATGCTGTCTTTGTGGACTGTGGGTCTGGACTAACCCTGTGGTTGCCTGCCCTCCTGAGCCTCCGCCTTCCCAGCAGCGGCACCAAGGGGCCTTAGGGAGCCCCAAAACCTACCACTCGCGTGTTCCCCAAGCGCCTGGCTGCTGCTTCTTGCTTCCCGTCCCCCAGCCCCATGCTCCCTTTTACATTCTGTGTGTATCTAAAGGATGGAAAAATAAAACGCAATTAAAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120087-HOXB7:NM_004502:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.405
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=67.1)
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:
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)