HsaINT0035295 @ hg19
Intron Retention
Gene
ENSG00000135702 | CHST5
Description
carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 5 [Source:HGNC Symbol;Acc:1973]
Coordinates
chr16:75562428-75567081:-
Coord C1 exon
chr16:75566987-75567081
Coord A exon
chr16:75565539-75566986
Coord C2 exon
chr16:75562428-75565538
Length
1448 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCTCCTTCCTGCTTTGCCAGATG
3' ss Score
9.56
Exon sequences
Seq C1 exon
AAAGCTCCCAGTGAGGAACTGGTCTTCTGGAGACTCTGTGTGGCATAGAGTGATTCAACCACCTTAAGAAGACCTCTGGCTTTCCTGGAACACAG
Seq A exon
GTAACAAACACCTTAGCTTGGGATCAAGATCCTCCCTACCCAGGGAAGGGCTGGGCTGGCCAGGACAACTGTGTTTGGGCCAGAGCAGCAGGGTCCTGCACTCTGCAGGGGGCAATCACAGGTGGGAGAGGCCCACAGCCTGGGATCAGAAGTGCCAGGAGCTTCGGAACAGGAGTCCTGGAGTCCCAGCTTTCTTGCTGTCTCTCTAAGCCTTGAGTCTTTCACCTGAAAAATTGACATCATCATGCCCACCTCAGGGCCCAGAGTTAAGTTATCCAGTGGACTCGAAGCACCTAGCACTTGTGATCATTGAAGTCAGCAAATATGAGTTCCCTTCCTTTCTGGCACTCTGTTGGCAAGGGAGCTCACCATCCATCAGCCAGCACTGGAAAAAGTACAGTTGCACTTGTAGCGGAGGTGGGGGGCTACTCTCCTCATCTTCCAGGTTTTCCAGGAGTGGGTGTGGGGATCCAGAAGGCAGCTCGGGAGTCAGCAGGTGACAGAGGTGTTGGGCATCCTCCGCTCACTCCTGTCCCCGCATTGAGGCGAAGGAGCAGAGGTGAGATCTGCTCACAAGTTAGACCCTGGCTTCTCTCAGTGGGCAGTGTGGACAGGGGAAGGGGGCAGGCAAGGAGCAAAGGATGCAGGAGCAAGGAGAAAACTTCCAGGCTCCTCCCTTCCAAAGTCACCCAGCCTTGAGATCATTGCAGATGCAACAGGTGCAAACAGAAGAACACTTTAGGACCTTGGAATGCGGGAGGCTGGCTCAGTGTTCCTTCCACCCTGTGAGAAATGCGTGACATTCTTAAGGTCCACTAAAGGCTCAGGGTGGTTGGACGCCAGAGGATGGCCTGGGAGATACAGGGATTGGAAGGGTAGGTGGCCTGTGGGTGTCTCCTCTGTGGGGAGACTCACCAGGTGGAGGGGGTTCTTTCTCTCCAGATGTAGCTCAGCACAGGGACAGTAACAGTAACAGGGGCATGTGTGTAAGGAATGCTTCCCCAGGCCCTCCCCTCATAGGTGTTTGCAGCAGCATCCATCACAACAGCTCTAAGAGGTTAAATATTGCAAATCCCATTCTACAGAGGTGCAAATTGAGCCTCAGAGAAGTTAAGTCACTTGCCCCAGGTCTCATAGCTCCCCATTGGCAGTGCTGGGATTTGGAGCCAGCTCTCTCGCTTCCATCCATCAGGAGACCCCGCCAGTTCCCAGCCATTTGGAGAAATGCCCTACTCAGACTTATTCAACCTCAGCAAGCCTGGTGGTGGTGTGACATCCGCCTAAACCGTCATCAAGCCCTTTAGCTCCACAACCCAAAAGGGTCTCTCTACGAGTTATCCTGAAGCAAAAGGCAGGCAGGACAGCTCTGTTCCCACCCTGGGGAGCTTTCTATGTACAGGGCTGTCTCTCTGTAGGGCTCTGATCTCCTCTCCTTCCTGCTTTGCCAG
Seq C2 exon
ATGTCGAGACATCTCCCATGGATTTGTGATCAGCGTTGCAGCTCTCCCAGCAGCCCTGGACGGTGGTGAGTCCCCTCAGCTGGCCAGGACAGTACTCTGCTCTCACCTCTCTGCTTCTTGGGCTCCATCCCAGCTCCCCATCAACTGATCTTCTTGCAAACCCACAGGGCTCCAGGACACCCTCCTTCTGGAGCCCATGCTGCCTACAGCACTTCACTCCCCACCAGTGATGACAACAGTTGCTGTTCTTTGTCCACTTTATTTACTTGTTTATCTTTAATGACAAAAGTTTTTTTTTTGTTGTTTTTTTTTTTTTTTTTGAAACGGAGTCTCACTCTTCACTCAGGCTGCAGTGCAGTGGCGCAATCTCAGCTCACTGCCACCTCTGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCACCATCACGCCTGGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTCTCACTGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCATAATGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCTGACAAAAGTTTTATACCTGCCTGTTAAAAAAATTATATAATACAGAAGCACACCTTGTAAAAGGTGCAATCCTCAGTTATGGGCATGACTGCGTGTTCCCTTCCCCCATCTTCATTATAATAACCCCCCAATCCCCCCAGATCCTGTGAGCCAGGTACCGGAATTATCCCTCTTTCACACACGGGTAAAGTGATCCGTCACAGAGAGATTTAAGTGATCTTCATAAGCAAGATCATAGGCTAGGAAGTGGCAGAGCCAGGATTCAACCTCGGCGAGCCTGGTGGTGCTCTGACATCCACCGAAGCCCCCATCAAGCCCTTTTAGCTCCACAACCTAAAAGGGTCTCTCTAAGAGGTATCCTGAAGCAAAAGACAGGAGTTCTCTTTGAAACATAGTATTTCTCTCTACAGATAGATAGCCTGTAGGTATGTAAGTAGGTGGGTGGGTGGGTAGGTAGACAGTTTGATGATATCCCACATTATTCTGCAACTGGACTTCTGCTGTGAGCACAGACTATATTCTGGCCTATGTCTTGACTCCGTATTCCTGGGAAAGTGCTCGACTGAGACCTTGGGAGTCTTGGGAAGTCCAATGGGTAGGGTAGCCGAATCTGAGGGCTGATCCCTGAGGGCACTGGGCAGTAATTGGGGCATGGGATGGGCATGAGGGCCCGGGTCCCTAAAGTTGCCCACTCCACCCGAAGGCCCCCAGCCGCCCGCATGTGGCTGCCACGGTTCTCCAGCAAGACAGTGACAGTGCTCCTCCTGGCACAGACCACCTGCCTCCTGCTCTTCATCATCTCCCGGCCAGGGCCCTCATCCCCAGCCGGCGGCGAGGATCGTGTGCACGTGCTGGTGCTGTCCTCGTGGCGCTCGGGCTCATCCTTCTTGGGCCAGCTCTTCAGCCAGCACCCCGACGTCTTCTACCTGATGGAGCCCGCGTGGCATGTGTGGACCACCCTGTCGCAGGGCAGCGCGGCAACGCTGCACATGGCCGTGCGCGACCTGATGCGCTCTATCTTTTTGTGCGACATGGACGTGTTTGATGCCTACATGCCACAGAGCCGAAACCTGTCCGCCTTTTTCAACTGGGCAACGAGCCGCGCGCTGTGCTCGCCGCCCGCCTGCAGCGCCTTTCCCCGAGGCACCATCAGCAAGCAGGACGTATGCAAGACACTGTGCACGCGGCAGCCATTCAGCCTGGCCCGGGAGGCCTGCCGCTCCTACAGCCACGTGGTGCTCAAGGAGGTGCGCTTCTTCAACCTGCAGGTGCTCTACCCGCTGCTCAGCGACCCCGCGCTCAACCTGCGCATCGTGCACCTGGTGCGCGACCCGCGGGCCGTGCTGCGCTCCCGGGAGGCGGCGGGCCCGATACTGGCACGCGACAACGGCATCGTGCTGGGCACCAACGGCAAGTGGGTGGAGGCCGACCCTCACCTGCGCCTGATTCGCGAGGTGTGCCGCAGCCACGTGCGCATCGCCGAGGCCGCCACACTCAAGCCGCCACCCTTCCTGCGCGGCCGCTACCGCCTGGTGCGCTTCGAGGACCTGGCGCGGGAGCCGCTGGCAGAGATCCGCGCACTCTACGCCTTCACCGGCCTGACCCTCACGCCACAGCTCGAGGCCTGGATCCACAACATCACCCACGGGTCGGGGATCGGCAAGCCAATCGAGGCCTTCCATACTTCGTCTAGGAATGCGCGCAACGTCTCCCAGGCCTGGCGCCACGCGTTGCCCTTCACTAAGATCCTGCGCGTGCAGGAGGTGTGCGCCGGCGCGCTGCAGCTGCTGGGCTACCGGCCTGTGTACTCTGCGGACCAGCAGCGTGACCTCACCCTGGATCTGGTGCTGCCACGAGGCCCAGACCACTTCAGCTGGGCATCGCCTGACTGAGAACTCTGGGCCTTAGAGCAGGCCCCGAACTGTGGTCGCCAGGCCCAGGAGGCGACTGCATGGTGGAGAGGGAGCTGGGGCGCATGGGGAAGCAGGTCCCTACTATCAACCGGGAGTTTGGGGTCCTCCCCTGAAGTAGGCAAGGACTGCACGTTTCTTTCTCTCCTGATTCTCGGTTTTCCTTTGAGTCTTCTGGAGCTGCCTTCTCATCAGGTGCACTCTTCATGGAAAGCAACTCTTGCCCCTACCTCTTCTGGGCGCAGGGAGTAAGTTACTGCTAAATTAAATTAAATGTGTGCCAGGCCGGGTGCGGTGGCTCATGCCTGTAATCCCAGCATTTTGAGAGGCTGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAAACCAGCCTGGCCAACATAGTGAAACCCCCTCTCTACTAAAAATGCAAAAATTAGTCCGGCGTGGTGGCACACTCCTGTAATCCCAGCTACTTAGGAGGCTGAGGTGGGAGAATCACTTGGACTCCAGAGGTGGAGGTTGCAGTAAGCTGAGATCATGCCACTGCACCCTAGCTTGGGTGGCAGAGCAAGACTCTATCAAAAAAATAAGTAATAAATTTGTTCAAAAGTCCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135702-CHST5:NM_024533:2
Average complexity
IR-S
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=77.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGAGGAACTGGTCTTCTGGA
R:
AGTGGACAAAGAACAGCAACTG
Band lengths:
344-1792
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)