MmuINT0153260 @ mm9
Intron Retention
Gene
ENSMUSG00000026811 | St6galnac6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:MGI Symbol;Acc:MGI:1355316]
Coordinates
chr2:32474017-32476324:+
Coord C1 exon
chr2:32474017-32474124
Coord A exon
chr2:32474125-32474859
Coord C2 exon
chr2:32474860-32476324
Length
735 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCCCGTTTGCTATGCCCAGCCA
3' ss Score
3.67
Exon sequences
Seq C1 exon
GGAAAAGTCCCATTCCTGGTTGAGCACGGGCTGGTTTACCATGGTGATTGCGGTGGAATTGTGTGACCATGTGCACGTGTATGGCATGGTCCCTCCTGACTACTGCAG
Seq A exon
GTGAGCTCCCCTGGCCACTGTCCCCTGGGGACCGTGCCCAGTTCCTGACTACAGGGTAAAGCTGGGAGGTTTGGAGACATGGGTGGGGTACCTCTGAGGGCCTCTGTGGGATGGTATTCATGTTGATCTCCAGAGGTGGGCTTCTTGGAGATGCCCCAGGGGCTTCCACTCCAAGCTGAGTTGAGTTTGTTGGTAATGACTGGATGGAGAGCCATGGGGTGCTAGCTGTGTTCTGCCGAATGCTGACCTTGCAGCGAGCATCATCTCCTGCCTCATTAGTCCTCACACAATGCTGCAGCACCACCACCACCCCCATTTCCTGAGTGCAAATGAATCGAGAAGGGTATTTAATGAGGGGACCTAAGGGCTCAGAAGCTATCAGGGTACCAGGCTTCCCAGCCCCCAGTTCTTAACCACTGCCTCACCCCCAGCCTCCACTGCTGCTCTGTAGAGAAAAGAAAAAGGTTACATTTTGTTTAAAAGAAACTGAATGGTTTTGAAAACCTAATACACACACACACACACACACACACACACACACACACACACACGCACACACGCACGCACGCGCATGTGTATAATATGCCCATATATTTATTAGATAGGGAAACTGAGGCTCAGGGAAGGGCAGAGATCGACCCCACTGAGGCTCTGGAGCAGGTAAGGGGTAGAAAAGACCCCTAACAGGCGTCCACCTTGCCCTCCTGTCCCTGATTCCCCGTTTGCTATGCCCAG
Seq C2 exon
CCAGCGGCCCCGCCTGCAGCGCATGCCATACCACTACTATGAACCCAAGGGGCCGGACGAGTGTGTCACCTACATCCAGAACGAGCACAGCCGTAAGGGCAATCACCACCGCTTCATCACCGAGAAGAGGGTCTTCTCGTCCTGGGCCCAACTCTACGGTATCACCTTCTCCCACCCCTCCTGGACCTAGTTATCCTGTCCACCGATCTCGGACAGATACAAACGAAGTGGCTCTGGCCCAGCCATTTAACCATGGCCATCTTCCAGCCAGTTCAGGCTGGCTGGAGTATTTCCCAGCCAATCAAATCAGGGCCTTGATGAGGGTTTTTTTTTTCCTCCAGCCAATCGGGGCTGGGGTTATCTCTTGGCCAATCAGGGATTTGGAATTCTGTATGGTTTAATCGGGTGTCAGGGGGTCTTTCTCGTCTAGTCAGGGTCTGAGCATAGTCTATCAGGGTATAGGGGTCTTTCTGAGTCAATCTGAAGCTTAGGACATGTCTTTTCCCATAAGGCTTTGCTTCAGAGCCCCAGGAATGGGCCCCCAAATCACTCCCTCCTTAGCTGGGACAATGAGGTCCTGTCCTAAGGATCTGAGGACTTGGTGTTGCCCCACAGTTGCCAGAATCAGAGCTACTGTAGGGGGGAGGGGCTGCCAGGAGGCCAGGCCAAAGGATTTGTGGAGTTCTAGGAGTGGTAGGGAAGCCTAGGAGGTAAGAGGCGGTGTCCAGTTCCCGGTTTCTTCCTGAGTGACCTTAAACAGACCCTCTTGTCTTTCTGGTATGCTGTGATGACATCATAGCTCCGTATGTGGAGACCCTCACTCTCCGTTATACTTAAGTGTAAATTCCTCAGCTACCATTCCTCGCTGGGGGACTCAGCTCCCTGGGGATGGGGAGCCTGGGGTACCCTTCCCTGCCTCCTTCTAGAAACTTTAGGGTATTTTTGTGCAAGTGCCCCCCATGGTTGGGGGATCCTGACAGAAATGGGGCAAACATGAAGCTGTTTCTCTAGCCCCTCAATCCAGCTGCCGTTAGCCTGGCTCTAGAAAGGCCAGGCACCTCTTCCTACCCTCCAGCAGGAGAGCATTCCCTGCTGCCCGAAGGAGCCTTTGGGACTGAGGAAGGGGTATCCCAGCCACACCAGGGCTTCGTGAAGTTTTTGTCTGGAGATGCTGAGGGCTTTGGGGAGAAGTATCCTCCCCCAAGTTTGGGATGAGACTAGAGATGGGGACTGGGTTCTGTCCCTTGCTTAAGCACTTTATTAAGGGCAGGACTGGGTGGGGGTGTGGGTAACCCCCATTCTTCCACAGCCTGCAAGGGAAGGGCTTCCAGAAAGGCTGTGGACTGGGGGTTGGGGGAGACTAGCCAGCAGTGAGCCCTGCACAGCAAGGTAATGGGGGTTGGGCAGTGACAGCCCTAGATCTGGTTTTGTAATGATTTATACAGAAATAAACACGCCTAAGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026811-St6galnac6:NM_016973:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.063
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PD(13.4=93.3)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(20.8=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGTCCCTCCTGACTACTGC
R:
ACCCTCATCAAGGCCCTGATT
Band lengths:
348-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: