HsaINT0069713 @ hg38
Intron Retention
Gene
ENSG00000198756 | COLGALT2
Description
collagen beta(1-O)galactosyltransferase 2 [Source:HGNC Symbol;Acc:HGNC:16790]
Coordinates
chr1:183975097-183978520:-
Coord C1 exon
chr1:183978410-183978520
Coord A exon
chr1:183975215-183978409
Coord C2 exon
chr1:183975097-183975214
Length
3195 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
AGCTATTATTATTATTTTAGGTC
3' ss Score
7.36
Exon sequences
Seq C1 exon
GGCAGCCACTGATCACAATGTGGATAATACAACAGAAATATTCAGGGAGTGGTTGAAAAATGTACAGAGACTCTATCACTATGTGGAGTGGAGGCCTATGGATGAACCAGA
Seq A exon
GTGAGTAGCAAGTGCGAAATTTGTAAACTCATTATTTACCCTTCCTCTTTAACTAGCTCTTTAGGGCTTCCAGGTTTGGAGGTACATGTGACTTTTCATTGTCTTTCATTTCTGTAGCTATGTGAGTTCTGAATATCTGCCATTTCTCCCTTTTAGAGATCTTCACAGTACTCTCTTGCTGTTTACTCCCACAGCTGCCAGCCAAGTTCAGATTTTCATTACTTCATAAATAAATTGCCATGACAGTTTATATTTTTAAATATTGATATTATTTATTCATATTTTAAACAAACTTTTATATTTGGAGGATCATATTGAAAATGTGTATACTTTCTACATAGAGCTTGCTTTTTTCAACTTTTATCTTGATAATCATTCTATAGCAATAGTTAAGGAGCTAATTTTCATTTTTTTTACTGCATAATCACTGTTGTATGTGCATTTACCATAATTATTTAATTGATCCCCTACTGATGCTCATTTAGGTAATTTCCTATCTTAACCATAGAAATTCCTTCTTTCTTTCTTTTCCTTCTTTTCTTTCTTTTCTTTTCTTCGCTTCTCTTCTCTTCTTTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTTTCCTTCTTTCTTTCAAGACAGGGTCTCACTCTGTCACCCCAGCTGGAGTACAGTGGCATGACCATAGCTCCACTGTAACCTCGTACTCCTGGGTTCAGGCAATACTCCTCACTCAACCTCCTGAGTAGCTAAGACCACAGCCATGCACCACTATGCCTGGCTAATTTTATTTTTATTTTTTGTAGAGACATGATCTCACCATGTTGTCCAGGCTGGTCTTGAACTCCTGGCCTCAAGCGATCCTCCCACCTTGGCCTTCCAAAGTGCTGGGATTACAGGTGTGAGCCTTTGTGCCTGGTTACCATAACAATTTCTTTCTTTTTTTTTTTTTTTGAGACAGAGTCTTGCTATGTCACCCAGGCTGGAGTGCAGTGGTGCAATCTTGGCTCACTGCAACCTCCGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGTGTGCCACCACACCCAGCTATTTTTTTGTATTTTGAGTAGAGAGGGGATTTCACTATGTTAGCCAGGATGGTCTCGATCTCCTGACCCTGTGATCTGCCCGCCTTGACCTCCCAAAGTGCTGAGATTACAGGTGTGAGCCACCGTGCCCGGCCACCATAGCAATTTATTAATTGCTTCTATCTCCAAGTCATCCTACATACCATACAGTCAAATCAATCTACCTCAAATACAAATGAAATGGTTTCATTTCTTTATTAAAAATACTTCACTTACTCTTTAGGACCTGAACAAAGTTCAAACACCTAAGACTTATATTTTTAAAATTCCATGAATTTAGCACCAAAAGAAAATGTGCTTTATCCAGAACGTTTCTTTTATTTCCAAACCCCACACTGTTGCTTGTGCAGGTCCTGGAAGACCCTTTCCTTCTTTATAACTAATTCTTATCCTAAATCATGCCTACTATAGAAACCTATTCTTAATCACTCAGTTATAAATATCTACCTTTGTCTCAACAATTGTATTGCTTATATTCTATGTCATCCTTTTTGGCACAATGATATACGCAACCAACATTTTCCCCCTATGCAATTAATGTATTTTTTTTCTAAATAAGTTGTAAGTTCTTTGGCAGGGGCTAGAATATATAAACACTTTATATTCCCCCTCTCCCCTCAGAGCCATGTTCTTGGCAGGCACTAAATTAATACTGGTTGGATGAACAAATAAGAACAAGAATAAATGTATTTAAAACTTACTATTATAAATGTTCCCAAAGCTACTACAGTTTTACTTTAAGGAACTGTAGAAATAGAATGAAGGAGTTGCCTGAATTTCTTCCCCAGAGAAGTCATTTATTGAAAGCCAAATTTGTATTATAGTAATAATAAATGCCATTCCAGAACAAGTTTCTGTTCTTCTAGTCTTTCTATATGTAAGAATTATTATAAATATTTATATTATAAAGAAATATATATAAATATGATATAATATATACATATGTGTTTCTCAAATCCAAGCCCATGGACTGTATATCAAGCAAAATTTAACAGTGAAGTCTGAACACCGTAAAAGATTGTAAACACTCCTTTAGAGTGCCTTATAATGGAGTTTGGCCTAACAAAAATGGCACAGAAATACTTTGTGTCCCTTCTTTGCACCTTGGTAATGTTCTCTGCAGCCAGGTTTTGACTAAATATATTATATGCCAAGGTCAGTGTGAAAAAATATTAGAACAGGCATTTTTGGGGGGAATATATTTAGAAAAATGAGAATTCCACTGATTTTCATTGAAACAATAACTGGGGAAGATATTCCAGAGAATTCCTGTGCTGTACATAGTTTTATTAACCTTATTTGTTTAGTTACAGTCTCATTGTTTTTGCAGTTTTTCACTCACTAAAACAAATGTACTGCCAGTGCAGCTATGAGATCTTGAAGTGGTGGCCAGTTTTGGGTTACTGCAACAGTATCAATGTCCGTGCCAGCTGGGTGCCTTCAGAAGGGTTTTGGAGCGTGCTCCAACCCACTTGCCTATGTGGCCATGAAGGAGTCTTGGCCTGGCTGTTTTGTGAATCTTGATAGAGATCCCACGACCTCACTTTACCTAAGATAGATCAATGTGTTAGGCTGTGTGGAATCATTTGTGGAGACTCCAACAAGTAGATTAAACCTTTGATTTTCCTGGGAAACTCATGTTTTACACTGCATACTCTCCAAATCTATTCGATGTCGGGATGTATAAAAATTGTCTAGGAACATGAGCTTTTTGCTTGGATTCAAATCTTGATTGTGCCCCATTGTGTAACATTGGACGAATGACTTAACTGCTCTACCCTGATATCCTCACCTGTGAAATGCAGAGAATAGCAGTACTCACCTCAAAGGGCTCTCATTAGAACCCACTGAAATATTTCATGTAAAGATTCTTGTATACAATGAGCAGTGAGTTACTTGACTTCTCATTGCTCCGGTTTCCTCATCTGTAATATGGGGATGATGATAACAATAATAATAGTATCTACTTCCTGGGATTGATAGAAGATTAAATGAATACATATAAACATTTAGGACAGAGCCTGGTACATGTAGGCACTCAATAATGATGAGCTATTATTATTATTTTAG
Seq C2 exon
GTCTTACCCTGATGAAATTGGACCAAAGCACTGGCCAACCTCCCGGTTTGCCCATGTGATGAAACTACGACAGGCAGCCCTTCGAACTGCGAGGGAAAAATGGTCAGACTACATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198756:ENST00000361927:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(30.6=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(32.2=100)
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:
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
- Autistic and control brains
- Pre-implantation embryo development