HsaINT0035297 @ hg38
Intron Retention
Gene
ENSG00000183196 | CHST6
Description
carbohydrate sulfotransferase 6 [Source:HGNC Symbol;Acc:HGNC:6938]
Coordinates
chr16:75478428-75481891:-
Coord C1 exon
chr16:75481817-75481891
Coord A exon
chr16:75479845-75481816
Coord C2 exon
chr16:75478428-75479844
Length
1972 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
GCTGCGCTCTCCTCCCTAAGGCC
3' ss Score
6.67
Exon sequences
Seq C1 exon
GTGCTGAGGAACCTCTAATCATCTCCCATGGATTTGTGATCAGCGTTGCAGCTCTCCCAGCAGCCCTGGACAGTG
Seq A exon
GTGAGTCCCCTCAGCTGGCCGGGACAGTCCTCTGCTCTCACCTCTCTGCTTCTCTGGCTCCATCCCAGCTCCGCCTCAGCTGGTCTCCTTGCAAACCCACAGGGCTCCAGGACATCCTCCCTCTGGAGCCCATGCTGCCTTCAGCACTTCACCCCCTACCGGTGATGGCAACAATTGGTGTTCTTTGTCCACTTTATTTATTGGCTCATTTTTTTGTTTTTGAGAAAGAGTCTCACTCTATTGCCCAGGCTGGAGTGCAGTGGCATAATCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGCGATTTTCACGTCTCAGCCTACCAACTAGCTGAGACTACAGACATGCACCACCATGCCCAGCTAATTTTTGTATTTTTTTTGGTAGAGATGGGGTTTTACCATGTTGGCCAGGTTGGTGTCGAACTCCTGACTTCAGGTGATCTGCCCACCTCAACCTCCCAAATTGCTAGGATTACAGGCATGAGCCACTGTGCCTGGACTTATTTGCTCATTTTGATATTGTACTGTATGTTTTGAGTCAGAGTCTCACTCTATCGCCCAAGCTGGAGTGCAGTGGCATGATCAAAGCTCACTGCAACCTCAAACTCCTGGGCTCAAGCAGTCCTCCCACCTCAGCCTCCCGAATAGCAGGGACCACAGGCGCACTCCACCACACCTGGCTTTCCTTTTTTTGTTTTTTTTAATGTTTTTGTAGAGACAGGCAGGCTATCCATATGTTGCCCAGGCTGGTCTCAAACTTTTCGCCTCAAGGTATCCTCCCACCTCAGCCTCCTAAAGTGCTGGGATTACAGGCTTGAATCCCAGGCTCGCATCCTGCCTATTTGCTTCTTTTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTTGGAATGAAGTTTTGCTCTTGCCCAGGCTGGAGTGCAATGGCGCGATCTCGTCTCACTACAACCTCTGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGGATTACAGGTGCCCGCTACCACGCCCGGCTAATTTTTGTATACTTAGTAGACATGATGTTTCACCATGTTGACCAAGCTGGTCTTGAACTTCTGACTTCAGGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCAGCGCCTATTTGCTTATTTTCAATAAGAAAAGTTATTTTCCATAAGAAAAGTTATACCTGTCTATTTAAAAAAAAAAAAATCATACACTGCAGAAGCACACGCTGTAGCAAGGGCACTCTTCAGTTAGGGACATTACTACATGTCTCTCCTGTCCATCCAGGATATTCAAACATGTTCCCATTTTCCAATAATCCACTTAAATCCTGTATTATGTGCTGGTATCATCTCCCTTTTGCAGATGGGTAAACTGAGTCACGGGGCGATCCAATATTTTGTTCAAGATCACAGGCTATGTATGTCAGTGTAGTGTGGGAGATTAAAAAAGGAAAAAGACCACAGGCTACGGAGTGGAAGAGCCTCAGGGAGCCTGGCCGTGCTGTGACATCCACCAGAGCGCCCATCAGTTCAACAACCTAAAAGAGTTTCCTTACAGGAATTCTTAAGCAAAAGACAGGAATTCCGTTTGAAATATATTTCCCTCTCCAAATAGACAATGGTAATGTGGGTAGGTAGAACTAAGAAGGTAGGACTCACATTAAGAAGGTAGGACTCACATTAAGAAGGTAGGACTCACATGTAGACAGATTTCCGACCGCATTCTGCATTTGTACTTTTGCTCTCAGCTAGACTGGATCCTGAGTTATGTCTTAAGGCCACATTTCCGGGAGAGCTCCCCACTGAGACCATCATGTTCATGGGATGCTCGGGTCTGGTGGTAGAATCTGCCCCCTGCGGGCACTGGGCAGTGGGGTACGGGATGGGCGTGCAGGCTGCAGCCCCTAACCGCTGCGCTCTCCTCCCTAAG
Seq C2 exon
GCCCCCAGCAGTCAGCATGTGGCTGCCGCGCGTCTCCAGCACAGCAGTGACCGCGCTCCTCCTGGCGCAGACCTTCCTCCTCCTCTTTCTGGTTTCCCGGCCAGGGCCCTCGTCCCCAGCAGGCGGCGAGGCGCGCGTGCATGTGCTGGTGCTGTCCTCGTGGCGCTCGGGCTCGTCCTTCGTGGGCCAACTCTTCAACCAGCACCCCGACGTCTTCTACCTAATGGAGCCCGCGTGGCACGTGTGGACCACCCTGTCGCAGGGCAGCGCCGCAACGCTGCACATGGCTGTGCGCGACCTGGTGCGCTCCGTCTTCCTGTGCGACATGGACGTGTTTGATGCCTATCTGCCTTGGCGCCGCAACCTGTCCGACCTCTTCCAGTGGGCCGTGAGCCGTGCACTGTGCTCGCCACCCGCCTGCAGTGCCTTTCCCCGAGGCGCCATCAGCAGCGAGGCCGTGTGCAAGCCACTGTGCGCGCGGCAGTCCTTCACCCTGGCCCGGGAGGCCTGCCGCTCCTACAGCCACGTGGTGCTCAAGGAGGTGCGCTTCTTCAACCTGCAGGTGCTCTACCCGCTGCTCAGCGACCCCGCGCTCAACCTACGCATCGTGCACCTGGTGCGCGACCCGCGGGCCGTGCTGCGCTCCCGGGAGCAGACAGCCAAGGCTCTGGCGCGTGACAACGGCATCGTGCTGGGCACCAACGGCACGTGGGTGGAGGCCGACCCCGGCCTGCGCGTGGTGCGCGAGGTGTGCCGTAGCCACGTACGCATCGCCGAGGCCGCCACACTCAAGCCGCCACCCTTTCTGCGCGGCCGCTACCGCCTGGTGCGCTTCGAGGACCTGGCGCGGGAGCCGCTGGCAGAAATCCGTGCGCTCTACGCCTTCACTGGGCTCAGTCTCACGCCACAGCTCGAGGCCTGGATCCATAACATCACCCACGGATCTGGACCTGGTGCGCGCCGCGAAGCCTTCAAGACTTCGTCCAGGAATGCGCTCAACGTCTCCCAGGCCTGGCGCCATGCGCTGCCCTTTGCCAAGATCCGCCGCGTGCAGGAACTGTGCGCTGGTGCGCTGCAGCTGCTGGGCTACCGGCCTGTGTACTCTGAGGACGAGCAGCGCAACCTCGCCCTTGATCTGGTGCTGCCACGAGGCCTGAACGGCTTCACTTGGGCATCATCCACCGCCTCGCACCCCCGAAATTAGTGGAGGCCACAGTTGTAGCAGGCGCTAGGCCCGGGAGGAGAGTGCATGGTGCAGAGGGGGCTGGGGCGCACGGAGAAGCAGGTCCCTATATTGACCAAGGAGTTTGTGGTACGACCCCTCCCCCTCCCCAAGTAGGCAAGGACTGCACGTTTCTTTCTCTCTTGATTCTTGGTTTTCCTTTGAGTCCTCTGGAGCTGCCTTCTCATCAGGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183196:ENST00000390664:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0068522=Sulfotransfer_1=WD(100=80.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGCCCTGGACAGTG
R:
ATCAAACACGTCCATGTCGCA
Band lengths:
358-2330
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