MmuINT0069481 @ mm10
Intron Retention
Gene
ENSMUSG00000032649 | Colgalt2
Description
collagen beta(1-O)galactosyltransferase 2 [Source:MGI Symbol;Acc:MGI:2138232]
Coordinates
chr1:152506793-152510695:+
Coord C1 exon
chr1:152506793-152506999
Coord A exon
chr1:152507000-152508511
Coord C2 exon
chr1:152508512-152510695
Length
1512 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
TGTGCACCTCTTGTTTACAGGGC
3' ss Score
8.3
Exon sequences
Seq C1 exon
TTACATCGGTCGAAAAAGAATGCAAGTCAAAGAGCCAGAGAAGGCAGTGCCCAATGTTGTAAATCTCGTCGAAGCTGATTATTCCTACTGGACCCTGGGCTACGCCATTTCCCTGGAAGGAGCACAGAAGCTTGTCGGAGCCGATCCCTTTGGGAAGATGTTGCCAGTGGATGAGTTTCTGCCAATCATGTACAACAAGCATCCTGT
Seq A exon
GTAAGTCTCCTTCCATGGCCACCTGTCCCTTGGTCACATACTGTTCACAAACTTAGCCTCCTGGGTGGAACTTGGTGTTTTTATAGTTGTATGGGTTTCCTAAAGAATCCTTTCATAATTATAACCTGGAAAAGTTTAGTAGATCTTTGAATGGACAGAAAGGATGAGACAGAGGAGGTAACTGCCTTGTCTAACATCCTCTTCATTACTCAGTGCACAGGATAATGGTCTGCTCAGAATCTACTTGTCTATGTTCTTCTGACTTTCTAACTTCACATAACTGAAGCTAAAGGTCATCTTTCTTAGGCCACCCTAGATTTATTCTAGCTTCACTCTGCTCACCCCATGTGTGTAGCACTAGGTAGTAGAGTACACATCCTCTTAGTATTCAAACCCAGGGAGATAACACAGACCCGTGAACAAATCATCATGATGTCTCATGACGCTCACTCATAGTCATGGAGGTGGCAAGAAATTCAGGGGAAGAGAAGATGGCATCTGAGCCAGATATCCAAGAAAGGAGGAATACAGTACTCAATGCCCAAGGCCCTGCTGACTGACCCGATACTTATCAAAGGGTCTAGTAAATGGCAGTTACCTGTTAGTCCTCACAGTGGGCTATAAATTCTTAGAGGCAGAAATAGCCACACATCTCTTAGACCCTTAGAGTATTTGTAATAGCTGCTGAAGCAATGTGTCCTAAAATCATGAGTGGAGCAGGAGGCCAGGTTCTGACCTTGATCCCTTCTCTCAGTTGCTAAGTGATCTCCAACTCGGACCTTCCTTTTAGCTGTTGAGGTCCCCACGATACAGCTTGATCATTTTATCTTGTCACCAGTAAAGATGGAGCTATCTGCCATCTTTTACACAATATGCGTTACCTCTGTATACTGACAGAGATATAGAGTCAAGCCACTATCTCCTGAAACAGAAAGGAACATAGCACTTAATTCTCCTGTGGACAAAGATACTGTATAGATATCCTTCACGTAACTTTCAAGGAACCCTTGGAGGAAGCAAAGATGTCCCTCTAGTTTTACAACTGCATAGAGCCAGGGCAGCAAGCAAGAACTGGGGTGCGATGGCCAGCTAGCATGCCTCCAAACCTTCTCCATGTCCCTTACCCCATTGTGGCTCTCCAGGTCTCAGATGTCCTCATTTCTTTATCAGTGGAAACAGGAATGGAACACTGATTGAGAATTGGTCATGTTTATTTATCGCTGTGAGTCCAATAGAGTTGATGTCTTACCTTTCAGAGTAAGACTTGAAGCTCTTTCACTAAACTGTTCTACCCAACCGCAACCGGTTTTGCTTGTCTCTACAGACCTTCTCAACACTTTAAAGAAATCCTTTTTGTGTTTGTAGTCTAAGGTTCTCCACAATCGATAGAACTTTACAAAAGCAAGAAATGTACCCAGGCAGTTTCAGAGATGACAAGCAGGGCTCTCTGCCTTCCCCATTCCCTGAGACTTCTTTCCGCCCCTCATGTGGCTGTGCACCTCTTGTTTACAG
Seq C2 exon
GGCTGAGTACAAGGAGTATTATGAGTCCAGGGACTTGAAAGCCTTCTCCGCAGAGCCTCTGCTCATCTACCCTACGCACTACACAGGCCAGCCAGGCTATCTGAGCGACACAGAAACGTCAACCATCTGGGACAATGAGACAGTGGCCACTGACTGGGACAGGACACACTCCTGGAAATCCCGGAAGCAAGGACACATCCGCAGCACCGCCAAGAACACGGAAGCACTTCCACCGCCAACTTCCCTGGACACTGTGCCTTCAAGAGACGAACTCTGAAAGCTTCCTGGGTGTGTGGTCTGCAAGGTTCATCACTGTCTGGATTTTCTAAAGGGCTACTCATCTGTTTGCTCCAGTTTGGGGTTTTGTTTTGTAGAGATGGCAGTCATCTAATCAAGTGGTTTGATGTGACTCATCAAAATTATATCATTTGTATAGTGAAGAACAGAGAAATTAAAAACCAAATTCCCTAGGAAGCCATTACTGGAATATCTAGGTTAAACTTCAGTCCAAATGCCCAGTTCTGCTCACTAGCTAGAGAATGCGGTTAGCCACACTGGTGTGGCAACATGGCTCATATTCTCATCCAAGAAATGGCACCCCAAGCTGTCACATCAGTAAGTGAGCAGTCAACACAGACAAGCCAGTGGACCTTGTTTACTAATCTAAGTGGTCCATTTTATGTGGCAGATGTGACCCTGAAATCATCAAGCCATCTAGACTACATTTATTCATCTAATTGATGTGACCTTGAAAACTGTACTATGTAACAAGTGTCTGGGAATGGGGAAACCAAACCATTAATTGGGCTTTTATTCAAAGGAGCTCTGTCATGAGTTTGTTGCAAAGTGGATGTTTTCTTCTTGGCTTTATTATCCCATGGAGTGAGAGCTGGAGCGATGGCTCAGTGGTTATTATCCAATGGAGTACGTAACTGGCTTGGGTAGCGACATGGGCTCTTGACCATCATGGCAGCTAGAGTGTTCATCAAAATGTCTAGGTGCCATGTGGCTATAATATTTAGATATTTATGGGGGAAAGATCTAAACCCTTGGCATTTGTATTGTGGCTTAAGTCCAATATGTCTATTTATAAAAAACTGTAATATATACAGGTTGTGAGGGATGGGGTGACCCAGAACCTCACACCTTATATGTCACCCCTTCGCCTGGGGAGGAACTGCAGGTGTGAGTGTAATAAGTCACTGTTGATGAGTTTAATAAGTCACTGTTGAGGGTCAGAATACATTTCAGCCTCACACTTGTCCTCGTTTTGGATTTTCATTATATTCTGAATTATTTATTTTACCAAAGTGGAAAAACCATCGTCTGTAGGGTGAAGCAAGCAGAGGAACAGATGTCTCAGACTCTCACTGCACACTGGGCAATGTCAGTATTGACACGTGAGTCTGCGCATCTGAATTGCCTGAATTTCCCAGCTTGGCTTTTGCAGGGAAGACCGCTGGTGAGAAGCTAACCAGTTAGGAGTAACTTATTCTCCAGTGGATATATAAGACACTGGCCTAGACAATAGATTTAAGTCAACGATCCACAGCTCTCAGAGCCAAAAATCCTAATTAGACACCTTTCTCCAAAAAAGTCCCCTAAAACTTTTTCCTAATTCTTCATAGGTAATTTAATGTCAGGTGCAATGCTGGACTGTGTCACACACAGTGTCAGGATTCCCAGCCAGCTGTTGAGAGTGCTTGTGGTGCTTCACCTCAGCCACCCTTCCTTCCTGGGTATGATTCAGGCTTCTTGACTGAAGCTGAGAAACCAGGCTTATCCAGCCCCAGCTTGTGTCTTCTCATCTAGAGAAAAAGAGAAGAGCATTAAGGAGCTCATGAGGAACCCTAAGTGGTTCCTAAGGTCTCCTTGGGTGTTCGGTATTTTGTTTGTGATTTGAATGTGTGCAAGAATGCCTGGCTTTAACTGTGTATTTTATAGGAGTGGGAGGTGGCTGGGGCACTGGAAGTGAAGGGAGACTGAGTTATGTTTTGTGTTGTTGTTGTTTTTGTTGTTTTCGTTTCTGTTGCTGTCTTAATGGGTAACTTTCTCCCGTTTGCCCTGTCAGCTGGTCTGACGGATTTAAGAATTTTCATTCTTAAAAGACATTGGATTTCAAAGTTTGAATTCTAGATTAGGACCTTTTCTAACTGTGAATAAAGTTCTGGTTCTGTTAGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032649:ENSMUST00000044311:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.359
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(32.3=85.7)
A:
NA
C2:
NO
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:
TGCCAGTGGATGAGTTTCTGC
R:
TGAACCTTGCAGACCACACAC
Band lengths:
355-1867
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