HsaINT0077312 @ hg38
Intron Retention
Gene
ENSG00000128710 | HOXD10
Description
homeobox D10 [Source:HGNC Symbol;Acc:HGNC:5133]
Coordinates
chr2:176116579-176119942:+
Coord C1 exon
chr2:176116579-176117578
Coord A exon
chr2:176117579-176118953
Coord C2 exon
chr2:176118954-176119942
Length
1375 bp
Sequences
Splice sites
5' ss Seq
AAGGTCGGT
5' ss Score
7.13
3' ss Seq
TCTCCCTTTAATTTTGTTAGAGG
3' ss Score
4.45
Exon sequences
Seq C1 exon
CTGGGCCGGTTGTCTCCAGCGCGCACTATCGCGGGCGCGTAGTAGATGTCGCTGTTGTCCGTGCTTACCCGGCCGGCCGGCCAGGCTCTGGAGCACGTGACCCGAGAGGAGGCTGCGGCTCAAGGCCATTTTCAAATCTCATTGGCTTGGTTGTCATGTGGTCGGCAGAGGCATCCACAATTACACGGGGAATGTTTTCCTAGAGATGTCAGCCTACAAAGGACACAATCTCTCTTCTTCAAATTCTTCCCCAAAATGTCCTTTCCCAACAGCTCTCCTGCTGCTAATACTTTTTTAGTAGATTCCTTGATCAGTGCCTGCAGGAGTGACAGTTTTTATTCCAGCAGCGCCAGCATGTACATGCCACCACCTAGCGCAGACATGGGGACCTATGGAATGCAAACCTGTGGACTGCTCCCGTCTCTGGCCAAAAGAGAAGTGAACCACCAAAATATGGGTATGAATGTGCATCCTTATATACCTCAAGTAGACAGTTGGACAGATCCGAACAGATCTTGTCGAATAGAGCAACCTGTTACACAGCAAGTCCCCACTTGCTCCTTCACCACCAACATTAAGGAAGAATCCAATTGCTGCATGTATTCTGATAAGCGCAACAAACTCATTTCGGCCGAGGTCCCTTCGTACCAGAGGCTGGTCCCTGAGTCTTGTCCCGTTGAGAACCCTGAGGTTCCCGTCCCTGGATATTTTAGACTGAGTCAGACCTACGCCACCGGGAAAACCCAAGAGTACAATAATAGCCCCGAAGGCAGCTCCACTGTCATGCTCCAGCTCAACCCTCGTGGCGCGGCCAAGCCGCAGCTCTCCGCTGCCCAGCTGCAGATGGAAAAGAAGATGAACGAGCCCGTGAGCGGCCAGGAGCCCACCAAAGTCTCCCAGGTGGAGAGCCCCGAGGCCAAAGGCGGCCTTCCCGAAGAGAGGAGCTGCCTGGCTGAGGTCTCCGTGTCCAGTCCCGAAGTGCAGGAGAAGGAAAGCAAAG
Seq A exon
GTCGGTATGAGCAGAGTTGCCACCCCAGCGGGGCGCGCAGCCCGGGAACCCGGCAGAGAGGGAGTGCCGGGGTGCCCAGCGCCGAGCCGGAGCCCGACTTGGCAGGTGCTGCTCCGCCTGGTTTTAGAGGGGTGATCTCAGCCCTGAGATAGTCCCCGCTTCTCCCCTGCTGCCCTGGCCCTCTCCGCCAGTCCTGGCCCCACGCTGATGGCGCCCGGGCAGAGGAAAAGCTTGCCGGTTTTATTTTTCCTGAGCTAGACCTGAACACAACAAAAGAGCGCAAAGGAGACCTGCGGCTCATAAACACGACCACAGAGCCTCTTTTCTCCTGCTCAGATTTGCAGTTCCAGTTTTGCCTTGAGCCCAATGATCATGTTAAGGTGATCCAGGGCACCGTGTTCGTGTTCAAGTGTATGCACCCCGCATCCTGCGAGCTTGGGGGTGGTGAGGGGAAAGAGATGGCTGGGCTGGTTGGTGCTTGAGTTGGGAAACAGGGCTTACTGCCTTTGCTGGGCTAGGTAACCTTGGCTTTGTTTAGGAAAAGTGCTGCAGTCTTTGCAATCCGTCGGCAAAGAGGGCAAAGGCGGAGGGGGAGAGTGGAACCCGCATTGCCCTCCCTGCAAGGCCAGCCTTAGGGCTGGGCTAAGGCAAAGAGCCAGGGATCTGGCTTTTTGAGAAGGAACCCTCCTCCTCTCCCCCAGTGCTTAGAGGTGGGCCACAGTAGGGGGCTCCCTTTCTGGGGGAATGCTTTAGTGTGGGGGCAAGAAGACATGAAAATTAAGGAAATTCTGGGGAATGCAACAATACCCAGGCAAGGTGGGGGAAGGTGTCTCGCTTCCCCATTTATCTTTTGAAAGAGAATGGGCACCTATAAACCTGACTGTCAGGATTCCTGACTGCCTAGGAGAGGTGGGGAAGAAGTGGCAGATTTGGGGACCTGAGGCAGCAGTGGGGTTGGTAGGCTTGTCCAGGTCGTGGCGTATTCCCCTCCGTCCCTGTTAGGAGCTGAACCCTTAGAATGTTGCTGGGGAGATCTGGAAAGTTTACTATTCTACTAATGTTTTGTACAAGTGAGAAAGTTGAAAGAGAGAGCGAGAACCCAAATGCAGACTGTCCTGCCATCATGTCATTTAAGTAATGTGGCATCAATGTAAGATTCCCTTCCAAGGCCCACTTCATGTGAGTAATGTTTAATACTAGCATTTTCCAAAGCGGCCTGGCTGCCAGCAGGGTCACGGCCAAGGGTACATTTGAACAGTCTGAAGAAAAAAACAAAAACGAAAACCAAAACCAAAACCAAAACAAAAACAAAAACAAAAACAAACAAACAAAAAACCTCTTGATTTTTTTCTTCTTCTCCCTTTAATTTTGTTAG
Seq C2 exon
AGGAAATCAAGTCTGATACACCAACCAGCAATTGGCTCACTGCAAAGAGTGGCAGAAAGAAGAGGTGCCCTTACACTAAGCACCAAACGCTGGAATTAGAAAAAGAGTTCTTGTTCAATATGTACCTCACCCGCGAGCGCCGCCTAGAGATCAGTAAGAGCGTTAACCTCACCGACAGGCAGGTCAAGATTTGGTTTCAAAACCGCCGAATGAAACTCAAGAAGATGAGCCGAGAGAACCGGATCCGAGAACTGACCGCCAACCTCACGTTTTCTTAGGTCTGAGGCCGGTCTGAGGCCGGTCAGAGGCCAGGATTGGAGAGGGGGCACCGCGTTCCAGGGCCCAGTGCTGGAGGACTGGGAAAGCGGAAACAAAACCTTCACCGCTCTTTGTTTGTTGTTTTGTTGTATTTTGTTTTCCTGCTAGAATGTGACTTTGGGGTCATTATGTTCGTGCTGCAAGTGATCTGTAATCCCTATGAGTATATATATATATATATATATATATATATAAAAACTTAGCACGTGTAATTTATTATTTTTTCATCGTAATGCAGGGTAACTATTATTGCGCATTTTCATTTGGGTCTTAACTTATTGGAACTGTAGAGCATCCATCCATCCATCCATCCAGCAATGTGACTTTTTCATGTCTTTCCTAACACAAAAGGTCTATGTGTGTGGTTAGTCCATGAACTCATGGCATTTTGAATACATCCAGTACTTTAAAAATGACATATATATTTAAAAAAAAAAGATTAAGAAAACCCACAAGTTGGAGGGAGGGGGACTTAAAAAGCACATTACAATGTATCTTTTCACAAATGAATTTAGCAGTTGTCCTTGGTGAGATGGGATATTGGCGATTTATGCCTTGTAGCCTTTCCCTTGTGGTGCATCTGTGGTTTGGTAGAAGTACAACAGCAACCTGTCCTTTCTGTGCATGTTCTGGTCGCATGTATAATGCAATAAACTCTGGAAATGAGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128710:ENST00000249501:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.510 A=NA C2=0.293
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=61.3)
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:
AGACTGAGTCAGACCTACGCC
R:
GCACCTCTTCTTTCTGCCACT
Band lengths:
357-1732
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development