HsaINT0016648 @ hg38
Intron Retention
Gene
ENSG00000143032 | BARHL2
Description
BarH like homeobox 2 [Source:HGNC Symbol;Acc:HGNC:954]
Coordinates
chr1:90711539-90714756:-
Coord C1 exon
chr1:90714531-90714756
Coord A exon
chr1:90712625-90714530
Coord C2 exon
chr1:90711539-90712624
Length
1906 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GCACACCCGCTTTCTTTCAGGAC
3' ss Score
8.3
Exon sequences
Seq C1 exon
GGACAAAGGAGGAAGGAGACCGGGAGATTACGAGTAGCCGTGAGAGTCCCCCTGTGAGAGCCAAGAAGCCTCGAAAAGCAAGGACAGCTTTTTCCGACCACCAGCTCAATCAACTGGAGCGTAGCTTTGAGCGGCAGAAGTACCTGAGCGTGCAGGATCGCATGGACCTGGCTGCAGCGCTCAACCTCACTGACACCCAAGTCAAGACCTGGTACCAGAACCGCAG
Seq A exon
GTAAGGGAGGCACTTTGGGGGAGCAAAGGTGTCTGGCCATTTAAGTCATGATCATTATACCAATCTTCTTCCCTCCTGGCCTCCAGAGACTCTAAGGACTGAGAGTGACCCTGGAGTGGGCACTTGGGTGCTTTAAGGATGGGGCAGGGATGAGCCACACCCCCAAGGTGAGAGAGACCAAAGGGCAGCTGGAATTTGGACAATTTTGCAATTCTATGTGCTTTAACAGGTGCTACTTTTCCTCTGAAACCCGAGCCGCTGGAATTCCCCCCACTTCATCCCCAAATCAATGAAGCCACACCTTCTCAAATTGAGACATCTGTGCAGCTGACACTTAGGTCCAGAGAGCCTGCGCGGTGCACCCCTTGGGCCCACCCCAGGCTGGTTCCAAAGGTTTGTAGCCAACAACACGGCCCGGCCCAGCTATTGCTATTCCCACAGAGCTGTCCCACCAGCCTCGGCGTAAATGTCCTTGCTTTGGCCTGTGAGGCGGCTGGGAGAAGCAGGATCCAAGCCTTGGTCAGTGTAGCTGCAGAGACTAGGAGAGCCCAGCTGGGTTAGAGTAGGTTTGGCAGCCGCAGCCTGGAGAATCGGCGGCTGGCCAAGCATCCGGACAGGGAGAAGGAAGGAGTGTGGGTCTGTCCCCTGTACTGGCTGCCTCTGCTGTCTCAACATGGAGCTAGAGTGCTGCAGAGCCTGCCTGGCACTGCTCCTTCTCTAGAAGGGAAATTAAGAAAGCAAAAGTGACTGCCAGTGCTCGCAGGGCCACGAAGTGTAGAGTGGAACCTGGGCAATCTGAGGCAGAGGTTTTGCTGTGTTTTCAAGCCTGGCACTCATCTCCTTGTCTCGATTTTCTCTACCCCTCCTTTTCTCCCGTTTGTGTTCTAATCGTCCATAAGTGCGGTTGGAAATGCCCATCCACTTGTCATCTTTACCATAATTTTCTGTCTCATTACATACGGTTTCAGCCACCCTAATTCTGTCGGAAAACATTAGTGTCATTTGTAGCCAATTTAAAATGGGCGACATGTTTATTAATTTGGCTGGAGCTGCCGGGTATGGATGGCCCACCAGCCCTGCGTTCCTTCATAAGGTATTTGAGCAAACGCCCGCTCTCTTCTTCCTAGCAGGGTGTGCAGCGGGGGAGGGAGGAGACTGAGAAAAGCTGATCACAGGTTTTAATTGTTACTTTATCTCTGAGGAGGAAATACCTTGAAATGCATTCACCCCCACCTCAGAATGGCCAGGAGGTACTTTGCCCTTGGGAGAACCCTCCCTCAAATGAATTCCATTTTGAGACCTTGTTGCCATCCTCCCCTTAAGCCCCCTGCCCACTGTAAGGTCCTGTCAGGCTTATGAGAGAAATATGTCTCCCAGCCCTGGGGACTGAGAGGGGCTGGGGTCCCTGGCTTAGGAGTCTCTGCATCCCTTTGTTTACGGTTTCTTCTCTCACAGCCTGGCGGGGAAGGAAGAGGGGCTGAGAGCAGACTCTTTGGGATTGTTGGGAGTTGGGAGATGTGGAAGGGGAACTAAGGAAGGAGGAAAGTGACTGCTTGTGGAAGTCTCCTTTGGCCCTAAGGAAAGTTTCCAGAAGTAGCCAAACTACAAGGGGGGCGACAGCAGAGCAGAGGTTTAGGAAAAGGAAGCAAGGCCTGTAGGATTTCATTTGTGAGGGTCTCAGCCACTGAAGGTGTAATTTACAAAACTGGCTTTGGGTTTGGGTCTTTCTGGGAGCAAGGCTGGGGCAGGAGATGTGGTGCATTGCCAGTTTGAAGAGGTCTCTGAGTCTTCCTGCCACCCAGGGAGAATGAAGGAGGAGGCAGGAAGGGGCCAGAGAAGGGGCCGGGTCTTGGTGCCTGGACCATGCCCACAGCTGCTGGGTGCCTGCACACCCGCTTTCTTTCAG
Seq C2 exon
GACCAAGTGGAAGCGGCAGACAGCGGTGGGCCTGGAGTTGCTGGCCGAGGCAGGGAACTACTCGGCGCTGCAGAGGATGTTTCCATCGCCTTATTTCTATCACCCAAGCCTGCTGGGCAGCATGGACAGCACTACGGCGGCGGCGGCTGCCGCTGCCATGTACAGCAGCATGTACCGGACTCCTCCAGCACCCCATCCCCAGCTGCAGCGGCCCCTGGTGCCCCGTGTGCTCATCCACGGCCTAGGGCCTGGGGGACAGCCAGCCCTTAATCCATTGTCCAGCCCCATCCCAGGCACCCCACACCCCCGGTGAAAACATTGCAGCGAAGGCACTGCAATCCCTTCCCCATATCCCTGCCCAACCCGGACTGCTGCCCGTCCTCTCCCTGCTCCAGGCCACTAGGCCTCCCTTGCAGCCAACTCTGGAAGGCAGAGGAGTAAGAGAGGAAGATGCTTACCAGTGGGCAGGGGACCCCCAAAGAGGAGCCAGCCCTCTGCTCTCCATCTCCCCACCCCTAGAAACAGGGCTGGAAATCTCCCCCACAGCAGTGTGACTGGTGAAAATGCTGACCCCACACAGAGTGCAACCAGTAAGTGAAAACATCAACAAAAACAAAACCTCAAATTCTTTTTCAAAAATGACTTTAGGGACAAGCAGGAGGGAGGGAGGGGGGAGGGCTAAGGAGGGAAGAAAGAAGGGCACGGAGCGGAAACAGCACAGGCAGAGTGAACTATATATGGACAGCCTCAAGTGCTGAGGCAAAGGGCGTTGCCGAGGACATTCCGTCTGCCCCAGAGAAAAGAGGAGGGTAACTGAGAACTTTGCACTGATTTCTCATGACCTTTTTTCTTTTGGAAAAGTGGCATGCTCCATAATATGAAAAAAATGTACATTTGAAAGACTGAGTGATAAGTGATATATCATATTTATTATATGTTGTCCAAAAAGAGTCACTTATATACGTTAGTAAAAACATGATTTTTCTTTTCATGTCTTTTCGATTCAGTAAAATAAATGCTTAGACAAAAATATAGATTTTTTTGTGATTGAAAATTACAAAAATAAAGTTTATCTTTTTTTAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143032:ENST00000370445:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.566 A=NA C2=0.365
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(89.5=67.1)
A:
NA
C2:
PF0004624=Homeobox=PD(8.8=4.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGAGCCAAGAAGCCTC
R:
GTCCGGTACATGCTGCTGTAC
Band lengths:
355-2261
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