HsaINT0016645 @ hg19
Intron Retention
Gene
ENSG00000125492 | BARHL1
Description
BarH-like homeobox 1 [Source:HGNC Symbol;Acc:953]
Coordinates
chr9:135457993-135462938:+
Coord C1 exon
chr9:135457993-135458650
Coord A exon
chr9:135458651-135462715
Coord C2 exon
chr9:135462716-135462938
Length
4065 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ACATGCCGCTGTGTCCGCAGTGA
3' ss Score
8.31
Exon sequences
Seq C1 exon
CTTTTGGATCTAATGCGCAGAGGAGGTTGGCCCAGAGCTCCCGGGCTCCCCCAAGGCTGAACTCCGTCCAAGGTGCCCGCAGGCTCCCTGCCCGCCTTCCCCATGCCAGCCCGCAGCTAGGGGCAGGGGCAGCGGCGGCTGGGGTTGGGGGTGGGTGGGGAGCTTTTGGGGAGGACAGGTCGCAGCTTGGCTATGGAAGGCTCCAATGGCTTTGGGATCGACTCCATTCTCTCCCACCGCGCGGGCAGCCCCGCCCTTCCCAAGGGGGACCCCTTGCTCGGGGACTGCCGTTCGCCCCTGGAGCTGAGTCCACGCTCAGAGAGCAGCAGCGACTGCTCTTCGCCAGCCTCTCCAGGAAGGGACTGTTTGGAGACGGGGACCCCACGGCCTGGCGGGGCATCCGGCCCAGGTTTGGACTCCCACCTGCAGCCCGGGCAGCTCTCAGCCCCGGCCCAGTCGCGCACCGTCACCTCCTCCTTTCTGATCAGGGACATCCTTGCCGACTGCAAACCACTCGCGGCCTGTGCACCCTACTCTAGCAGCGGGCAGCCGGCAGCCCCTGAGCCTGGGGGCCGCCTTGCGGCCAAGGCCGCGGAGGACTTTAGAGACAAGCTGGACAAAAGTGGCAGCAACGCCTCATCGGACTCTGAGTATAAAG
Seq A exon
GTAAGAAAGCAGGAGGTGAAAACTTGGGGGGATGCTATGTATCTAAAAACTGACATTTAAAAGGAATACACATGGCGGGACATGCACTCGCTCACCTGGGGGCTCCCCCAGGGCTCAGGTTGAGCAGTGGTTCTCCTCAGAACATTTCAGCCAGTCCTGTGGTTATGCCTTTGAGCAACAAAGAGTCTGGTGGAGACAGTGTGGGCAGGGGAGGGATACTGCGTGCCCGAGAGGAGATTTCCCCAAAATGCACAAAGCAAACTTTCTAAACTTCGACTGGGACCCCTGCCCTTCCAGCAGTGCTGGTGGACAGGAGCAGGTCCCAATCAGGCCAGTGGCTCTCTAGGAAGAAACCGTGCAGAAGCAATGGAAGACTGAAAGGGTTCTGCTTTATAGAGTGAAAATACAGCAGAAAAATTTCAGCTGGAGCCCTGAGAACCGTCAGAATTTTCTGCCTTTTAATCTACATTTCCAGACAGGAAGAAAAACAGGGCTTTTCCTCCCAATGGGCCCAGTGTGATCCGGGTTCTGTGAGTCATGAAAAGAGGCACTCACTTCAAAGCAGAAACCTCAGCCAGGAAGCTGCCTGGGAGCAGGTCAGGGGGCTAGTGCAGAGGGCAGTACCCTGCACCCACCCCCCAATGGCTCTCATTGAATTTGATTTTAAGTGCCTTGAGCAACCAACTCCGGGTTTTATGCAAGTTCCAGGGATTCCTGAGTAACCAGCCTTTTCTCCCGCTACACTGGGGTTGTTGCCCCTCCACTTTTCTTTTTACCTCTATGAATCTTCGTTGTTGTTTGTTCCATTTTCATCCCATCGTAACCAAGGAGATGAGATCAGGGTTAAAAGGAAAGGGAGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGGAAAGGGAAGAAGAAAAAAAAAGAATTCCCTAATTTTGTTTCTGACCCCCAGTCACTACCTCGACTTTAGCTGTTTTTCAAAGCCAGAGGCACAAAGTTCTTTCTAAGGGAGAAGTCAAGGGGCAGAAGGTGAAGAGGAGTATGAGGGCTTCATGGGAGACAGCCCCACGTCCCCATCTAGCAGATCACTGGGAGTGGGCAGAGGCTGTTCAGAGCTCTTTCAAGCACATAATTGATTCCCAGAAATCTTTTCAAGAGACAAAATTTCCCTGTAAGGGCAACTTCTTTATTGTCTTGCCCCCTCCCCCAACACCCCCACCCCACCCCCAGCGCCATACTTCCTGGTCCCTATTTGGACCAAGTCTTCCCAAAATTTTAGGAAGGCTCATTTAACACTCTCCTCCCAACCAAGAATTCGTTTGTGGATATGTCCTGACTCCAAACCGAAATTCATCGGTCCGACTGCACATCCCATTTTCTTGATTTCCCCCACACAAATGGCCGAGCCTCCTTCAGCCAGGCTGTGCCGACCATGCCTGGAAAGTAGGCAGGTTTAACGGAGCGGCCAGGAGGAGATCCAGAGGCATGCGGGTGTCCCCAGGCCCGGGCCCAGTGGTCCTTGCTCCTCCCCCGGGGGGCCTGCTTAGAGAGGCAAAGAAAACTTGCGCTGGAGAGAGACTGGCATGGAGAAGGGGGAGGAGGAAGGAGGGGGAAGTCAATGTAAATATATATTCATAACATCATGGTTATTATTTACCATTTGCAACAAGAACGGCCCCGCTTTAGTTAGAGCAAAGAGCACGAATCTTCCACCGCCCATGCTAATGGCTGGAACTGGAGATAGTGAGGCCCTTGCCTCCTTTTATTTATTTGCCCCCAGGAAGGATTTTGAGGACAGGTTTCGTTTAAGATAATTAGAATATCAATTTTCTTCTCCTGTCTCTGAGGATATCTGATCGGGAGGTGACGAGGGCCGGCTGTCTACATATCGCTTAAATAGGTTTGGAGCGAAGGGGGTAGAAGGTCTTGCCCAACCCCCACCCCAGGTGTTGCTGCCTTTGCCCCTAGTGAAAAAAGGAGCAGGGTCAGGCAGCGAGGCCTTGTCTGGAGCGTTTCTCAAACGTGGAGGGGACCTTTTCAGAGCTGAGAAACAGACACCCTGAGCCAGTCCGTGGAGCATTTAAGCTGGTCTACTCTCCAGCCGCCTTCCAAGCTGAGTCATTTCCTCCAAGGAGGGCATGGGGGAAGGTCAGCCTCATCCCAAGTTTCTGCTATCAAAGGCTCTTCAAACAATATTTATTTGATAATATTTAAAGAAGCCAAAACTCGGCTTTGAAGTAAGGTGGTCGGCGACACTAGCGGCTGGATCCAAGGTCCAGGGAGAACCCAAACCAGAGTTTTGTTCCCAGCAGGCAGGGTCGGTGAATGGGCCTGGAACTCGGGGACACTGAGATGTAGCCTCTAGAATCAGAGTCTGGGAAGCCAGTACCCCCTGGGCTGAGCCTATCCAAGAGGAGGCCAAGGCAGAGTGGGCACAGAACCTGCATTCAAAGGCTCCAGTCCACGCTGGAGGGGGAACAGAAGAAAAGCCCCAGTAGCTGACCCATTCTTCCTGACACCACAAACTGAATACCTCCCGACCTCCAACGCAGACCTCGTCCCTGAGAAGCGGGGGATTTTCATTAAGTAGCCCAGGCAATTTGGTCAAAAAGTAAGAGTTCTATGATATCAAGTTTGAGATTTGGATGATCGTTTCCTCAAACTTATTTAAACTATCTGTCTGCACAGACAGAACTCAAGTCCCCCTATTCCAACACATATCCTTCTCCATGCCCAAATATGGGGAGCCCACAGGGCAGGGAGAGCCTGGTGCCAGCCTGGAGGAGGCAGGTGGAAAGCCTTAGCGGGCTGCCGTTTCTCCTCTGCACTCTCCTGGCTCACCAGGCTGGATGCCAGGCCCTCCTTGCAGCGAAGCGCTGCCTTTTCAGTTGAAAAGTCTCGATCCCTAACGGCTCAATTAACCGGATTATTGTTTCCTACAGAGAGAAATCACCTTGCATTCAGCTGAACCCCGTCACTGCAAACGCCACGCACAATGAAACTCCACCATAAAAGAAAACAGAGAAAAAAGGGAGTAGGTTGGGGGAAAGCCCCAGTCTGAGCCGCCAATTTTGGGGAAGTGGTCTAGCTGGTTATATAATCGCTTTAGAGGGAGAAGGAGGGTGAGCATTGAGCTTGTTCGATTAAGTGTTTTCTGTGCAGTCAAAGCCGAACGAAAGTGTCTGGGATAAAGAAACTACCTGTGCCAGGTCTATCCTTCGACCTCAGGAGCTGGGCCCCCGGTGTAATTCTGTCCCGACTGTGGGGTGTAAACACACGATGCCACGCAGGTGTAGCAGGAGCCATCGTTAGCGGGCAATGTAATGACAACGGAACGCAGACCTGGGCAATGCGCGCTGCGCCCAAGGGGCAAGCGAGTGGCAGGGTCGCTTATTCTCCCAGTGCTCGGCGCTCGCAGACCCGGAGCCTTCCGCCCAGCGCCCTGTGTAGGTAGCGAGTGTCGGGAGAAATCATCACTACGAATTCGTTTCCATATAGGGGCAACGCCAGGCGGGGCACAATGATCTGTCCTTGAGGACAAAGAGTGATTCCGGAGAGAGCAGGTTTTTGTCCCTCCACGCAGGTTTCTCTCCCCAGACCCCAGCCTTCGGCTTCCTCCCTTCCTGTCACGGACGCAGCCGGAGAAACTGGGGCCCAGACGCGGAGCTCACTCCGCCAGAAACCCTGGGTCCCTTCCCCTACGCTGGCAGGCTGGGTCCGGTTCCATCGTCGCGGCTCCGTTTATCCCTCCAGGGAGCGCGGGCAGAGCGCCGAGCGCGGCGCAGGGACTGGAGTTCTCGCCAGCTTCGGGTTCTTTCTCCCCGGAGCTGCCCGGGGGGTCTCGGCCTCGGGCGCTCCCGCCGCCGTCCTGTTCCCCTCAGGGTTCATGTCCTGTTCCCGGGGCCCCAGAGGTCCCGTCTGAGAGCGGCCCCCGCGAGCTTGGGTGTCGCGGAACCACCGCTGTCGGAAGCCGAGGTTACACAAACGCCACGGGCAGGAGCGGGAGGGCACCGGCGGCGGCTGCGAGGCCGGGCCCTGACATGCCGCTGTGTCCGCAG
Seq C2 exon
TGAAGGAGGAGGGCGACCGCGAGATCTCCAGCTCCAGGGACAGTCCCCCGGTGCGCCTGAAAAAGCCACGCAAGGCGCGCACGGCCTTCACCGACCATCAGCTGGCGCAGCTGGAGCGCAGCTTCGAGCGGCAGAAGTACCTGAGCGTGCAGGACCGCATGGAGCTCGCCGCCTCGCTCAACCTCACCGACACGCAGGTCAAGACCTGGTACCAGAACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125492-BARHL1:NM_020064:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.827 A=NA C2=0.440
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(89.5=68.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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
- Genotype-Tissue Expression Project (GTEx)
- 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)