MmuINT0069487 @ mm10
Intron Retention
Gene
ENSMUSG00000032649 | Colgalt2
Description
collagen beta(1-O)galactosyltransferase 2 [Source:MGI Symbol;Acc:MGI:2138232]
Coordinates
chr1:152495802-152500011:+
Coord C1 exon
chr1:152495802-152495878
Coord A exon
chr1:152495879-152499904
Coord C2 exon
chr1:152499905-152500011
Length
4026 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
CCTTTTGTATCCTGCATTAGATT
3' ss Score
6.25
Exon sequences
Seq C1 exon
TTGACCATCCTCCAATGGAGCCTTCCCAGTTCGTGTCAGTTGTCCCTAAGTATCCAGACAAGATGGGATTTGATGAG
Seq A exon
GTAGGAAAGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCCTCTCTCTCATCTCTCTCTGTTTCTCTCTATTTCTGTCTCTATCCCTCTGTCTCTCTGTGTGTACTCTTGCCCTTATGTGTGCATGTGTGTGCTTATATGCACATGTGTACAGAGACTTCTGTGTTAATGTTGGAACAGAAGGTGGAACATCTGTCTGAGAGCAAGCAGGCAAGCTTGGCAACTGGAAAGACCCTGAGGACTTGGGTTGGTTGTCATTCTGTTTTCTGGTCTTTACAAAGGAGAATCATAAAAAATGAACCAGAAAGAATTATTTGGCAAGGAATATAAATTTGCTATATATTTTACCAAACTTCTTATTGAGGTTCAAGGGTAAGGTAAGGAGAATATATGTTTTGGGCTCTGGAGGACATCAACTTTATTCTGCTAGAGCTGAGTGGATGGAAACTATTCTAGAATATTCTATGTTTTGTTTAATTTCTGCTTTTCTTCCATGGAAAAAAGGTTGGAGGGCAGAGTTGAAAGGACTAATGAAGAGAAAAGCATGTTCTAAAATTTTGTCTTTTGGCAGGCAAGAACTTTAGCGTAGTTTTCCTAGGGCCATATCTACTGTACAGTTGTAAGTATATAAATAACAAAGCAGAGGTGGGCTTTTAGCTCAGTGGTAGAGCATCTTCTTAGGATAAGTGGAGCCCTGGGGTCAATTCCTAGCACCACAACGAAAAGGGGAGAAGAGGGAGAGGGTGAGAGGGAGAGAGGGAAGGGGGAGGGCCAGAGGGGAAGGAAGAGGGAGGGAGAGGGAGAGGGAGGTGTACAGTAAAGAGAGGAAGGAAGGGAAAGAGGGATGGAGGAAGGCAGAAGGGAATGGAGGAGGCAGAAGGAGGAGGGAGACAGGAAGAGAGGGAGGGAGGGAAGGAAGAAAGGAGAGAGTTAAGGAAAGAGGAGAGAAGAGTGGAAGGAAGGAAAGAAAGAAAGAGAATAATATAAAGAAGTGGTTTTCTTGGTAGAGTGTAAAACAGATGGTTGCCAGGGCCAGAACTGTGAGTCTGTTCCACGAGCCCTTCATGGCCCCTTATGTGGTTGCTAGTGCTGAGGAGTTTTGTGGTCTAGAGCTGTGACCTGCCAGGAGTCCACACACTGGGACAGAATTCTTCCAGGGCTTCTGGATTTAAGCCAAGCATTGTGCTTTGAGCTCAGTATGCTTTTTGGAAGAAAACGCCTTATCACATTGGAACATTAACATCTGTGTCTCCAAATCATGTTCATCCCAAGGAGCTAATGGACCTAGGAGTTGGGGATCTCTGCTACAAAACTGACTTGAAGCTAGACTTCCAAATGCAGGAAATGGGTAGTTCATAAATACCAAGTAGAGATTATGCCATTTTCACAGAAGGCAGAAAAAGGAGAGATGAATTTAAATGTAGCACAAAGTATAAATAGACCCTATTGAGTCTATTCCTATTTACTAAAAATAGAAAATAGTTTTCAAAACTGACCGGTGCTACAAGGGTGGGCTCACCAATGGTGGGTCCTTGCTGCGGGGCGGGGCCTGCCACACAGCTTCCTCTTGCCGAGCACAGTTCTCCTTCCCGGAGACTGTGGCCTCTCTTCATTTTCTAGGAAAGGGGGCCCATGTGTTTTTCAGTGTCTTCCTTTTTCCTCCTGGCATCACATTCTGTGAGGATCAGATCACAGTAAATGAAACAAAGACAGACCGGACCGGCTTGCTCCGCCTCGGGCAGGACCGTGGTGTTAGTGCCCTAGAAAGTGAGGCAGCCCAGGACTTTGCTTTCCACAGCCCAGGATAATCATCTCTCTGTCTGCAGCAGACATGGGCTGTGGAAAAGAGGTGTCAGAGGTCTTTTCCGCCCTCCAATCCTGTGACCTGGTTGCTAGCGTCTGGCTGTATTAGGCACTCGGTTCTTTGCTCTGTTTACTAAGTATGAGCAAGCCGTCTGTGTTTTCCCTTCATGGCTACTGGGTTTATTGCCCTTGTCCTGGCAGGGCCCAGGGCGGGACTATTATTTACTGAAAGCTTCCTCGACTGGAGGCCTCTGGTTTGCAGGGGACTTTTTGGATGCTTCTCTGTTTGTTTTGTTTTGTTTTGCTTTGTCTCCTTGGGTGACCTCAGATGGCTCTGTGGATGCGAGAAGGATATGCCGTTTCCTTCCTATGTCTGTAAAACCAGGCAATGGAACATAATCCTTGACAGTTAGGATTCTAAAGACAGAGAAAATGAAAAAAGACGGCACATGCTTTAAGCTACATAGTCCCAAATATATGTCACACAGAAATTATGGTGGATTTTTTTTGTTTTATTAATAACTATCCAGTTAAGTAAGAGGGTATCAAATCATACTGAGTGCCTGCCCTGCCCAGCATCTCCGGAGATGATGCACAGAACATTCTGTTGCTCCCAGGACTCTATATGTGAACAGAGATGAGACTCTCTTACAGGGGAGAGTTGAAAGCTTAGTATAACTTCTGATGCTGCTAAAGCATATATTTAAAATTATACTCAGAGTAACTATTGAGCCAAAGCTCAGTGCAATATAGTCTGGACCTCAGCCTGATTGCATGATAAGATTTCTGCACAGGTCTCATAACATGAAGCCAACTTTACTATAAGCCACTATGCACAGATTTTCATAGGTACAGGGCTTGAGGGGTGGGTTTGCTCAAACCCCTCCTTTTCCAAACAGCAGAGCTAACTACACAGAGAAAATAAATACTGTCCCCAGAGTCACCTCGACAGTCAGGAGGCAACGAGTGTCCTCTGCCCTGTTCCTGTAGGTTTCTCCCTCACTGGGATGTAGATTCCTGATGGCTGTTAACATCTCCCAATAGTTTAATATTCAAAATCAGCTCATCAGTGCTTGCAGCCAGAGGCCTTTATTCAAAAGCTAACTTATGCACTGGTAAGACAGTCTGGTGGCTGAAAGCACTTGCTGTCAAGCTAGAAGATTGTCAATTGTCCTCTGACCTTCTCGACACTCACAGCAATGCAGTTACACTATACACACTAAATAAATAAATGAATAAATAAATACATACATACATACATACATACATAAAACGCTAATTTCCCTACAGCAGTCTTCATGAGGCTTTAGTTGCCTTATGATGTCTATATGTTAGTACTGCTATCATCTAGGCATTTCAGGCCAGGGTAAAGGGTACAGGCAGACTTGGCCCTCGCTCAGAAAGCCCGAATGCACATCCATCTGTATTCACAAGCCAGCAGGTGCCCTCTGTTGAGCACTCAAAAAAAAAATCTCATACCGAAATCATGTTTTATGCTACTCTCTCCTCGGTCAAGGGTAACAACCAGGGAACTGGGCCCTTTTCTTCAATGCCTTTATCCTTTTAGATTTAGGGGTTGAAGAATTCTGGCAAAAAAAAAAAAAAAGCTTGTGAGACGGAGATCTTGACATTCATTCTGAACACATGAAGACTCGGATCTTTCTTAGTTTTTGAAAGCTGTAAAGCTTACCTAGTGGGTGTGAATTGTGACGATACCAAGCATAGTACTTGTGCAGTAGAGCCACAGTGGTCCCCATTCCAGGATGAGGAGACTGAGACATGGAAGCAACAGGCCTTAGGCAAACAGCAAGCGGCAGTATTAAACCTGAAGTACGTGGATGCATTTAGTCATTTGGCTTGATTAAGCCATTTAGCAAAACACAGCTCCCCTTCTGAGCTGTGTATGTGCATTTTAATTCACCTTTGGCCTTTGGGGTGATCATTTTTTGAACTTTATTTGCTCAAGACAATAGAGAACGTGACCATCGGTGACTATCAGGTTAGGCCATTGCTGATGGTTATATCTAGAAAGCAGCTTAGTTCTGATAAATAGGTCCTCGCCCGTGAACCCAATAAGGAAGACAAAGCCATAGCTTTCTTCCCATCCCTTACCCCTCTGGTCCTCACATCCGTTTTGCTAAGCTTTTCAACCAACCCAAAATAACTCCCAGCCACTCGTGTTTCTTTGCCCTTTTGTATCCTGCATTAG
Seq C2 exon
ATTTTCATGATCAACCTCAAACGCAGGAAGGACAGGCGGGACAGGATGCTGCGCACACTCTACGAACAGGAGATCGAGGTCAAGATTGTCGAGGCCGTGGATGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032649:ENSMUST00000044311:7
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=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.8=100)
Main Inclusion Isoform:
NA
Other Inclusion 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
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types