MmuINT0153249 @ mm10
Intron Retention
Gene
ENSMUSG00000079442 | St6galnac4
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:MGI Symbol;Acc:MGI:1341894]
Coordinates
chr2:32595694-32599698:+
Coord C1 exon
chr2:32595694-32595801
Coord A exon
chr2:32595802-32597013
Coord C2 exon
chr2:32597014-32599698
Length
1212 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGA
5' ss Score
5.94
3' ss Seq
ACCCTGTTCCCTCCTAACAGCGA
3' ss Score
11.1
Exon sequences
Seq C1 exon
GAGACAATCAGGCTCCTTTCTCAGCACCGGTTGGTTCACCATGATTCTGGCCCTGGAGCTGTGCGAGGAGATCGTGGTCTACGGGATGGTCAGCGATAGTTACTGCAG
Seq A exon
GTTAGACCGGCGCCCAGGCTGGGGGTAGGGGACAGGGAAGGAGGGGGAGGTGTGAAGTCTTGAGCCAGAGGGTCTGTGAGCCGTGAGGGCTTCATGATGGGTGACCCGGGCACAGACAGCCCCCAAGGGCAGGCCTTTGGGAAAAAGACCAACATTTAGCTGGGCATAGTGATCCTGCTCAGGAGGTGGAGACAGGAGAATGAGAATCAAAGCTAACCTTGGCTCCAGATCAAGTTCAAGGCTACCCCGCCCCACACCTTCTGAGAGCCCCTCTGAAAAACTCAAACCAAAACAAAGCCTTGTACACCTCTCAGGTTGGTGAACCGTCTATGTAACTATGAGACTTTGCTACGTGACATCATCTAATACAGAGGTCATACTTAAGAACCAGGAGGTGGTGCACACAGCTCTAATCCCAGCACTCAGGAGGCAGAGTTCAGGGCCAGCCTGGTCTACAGAGGGAGTTCCAGGGCAGCCCAGAGAATCCTTGTGTCAAACAAAACAAAACATCTTAGGATCCACGTGGTGGAAAGAGACCCTGCTCTCAAAATGTCTTTTGACCTCCACATGCACTTTGTGGCAGCTTCTTACCCCCCACCCCCCAAATAATGAATAGATGCAAAAAAAAGTTAAGTTGCCAAAAAGATTTGGCAAAGTGAGCCTTGGGTTAGACCCACCTGATGGAGTGCTCACCCCCTGGACCCTATATCTATTTTAATGAAACATTACAGATAGATTTAGTTGACTTAAATACTGTGAGTTCAGATATGGATATGGAATTCTATTATAAGCATGTTATATTCTTATATTTCAGTATTACTATAACTAAGGAGTCTGGGAAAGGCCCCAGATTTTCACCCTTTCCCTTCAGAACCTATGTCTCGGGTGTATGAGAGAAATGGTCACAGCAGCCTAGGCGCACACTACTTCCTAGCAGGAGGGCGTGCCGCTGGCCCTGGCTACAGGAGTTAGGCATGGGCCGCTCCTGCCTAGAGTTTATCCATTGACTCCATTTCCAGATGGCCTGTTGTAGGGGTGTTTTTCAGATCCAAGGTCACCCAGCTTGCAAGGAGCAATTTCTGAATCCTGGCCAATGGGCTCCTCGCCTGCCCGGTCTCTGCCATCTGTCTCCCTCCTGCGCAGCTGAGGCCTAGTCCCAGAGGCTGGCAGCTTTGAGGCCTTGTTCCACCTGACCCTGTTCCCTCCTAACAG
Seq C2 exon
CGAGAAGAGTCCCCGCTCCGTGCCCTACCACTACTTTGAGAAGGGCCGGCTAGATGAGTGTCAGATGTACCGTTTGCATGAGCAGGCTCCAAGGAGCGCCCATCGCTTCATTACCGAGAAGGCTGTGTTCTCCCGCTGGGCCAAGAAGCGACCCATCGTGTTCGCCCACCCGTCCTGGAGGGCCAAGTAGTTCCTGTTGCCAGTGACTGCCAGGCCTCAGCCAGGCCTGTGACCCATTCCAGGCCAACACGGCTCTAATGTGAGCATTTATGACTCACCTTCTACCTGACACCAGGTAGAACATGAAGTCTCTATTACCCAACACTGGGTACACTCGGAGGAACCTCAGGCCTTGTGACTTGAAGAGGAGTCGAGAAGATGCCATTTACACCACCCCTGCTTCCAGAAGAATCCACATCTTCATCTTGGGGTTTGTCCCACTGCCAGGTTGTTTAAGTGACCTTTGCCCTGGGTCCGTCGATGGCCCCACCTCACCAGCATTATGGCTTTATACCAGTCTTGAACCTTTCCTCTACCTGGCTCCAGCCACATGGTGCCACATTCTCAGGCTGGTGGCCCTGGTTGGTGCACCCTGGAACTTGGGATTTGATGGATGTGAGGGCCTTTGAGCCTCAGCCTCTCAGGACTGACTGTCTTGGGAGTGTGCTGGTAAAGGCAGATTTTCTGGACACTGTGTCTCTGTGGTAACGGATGTGGGATGGGGGTTAGTTAGGACAAGGCCTGTAGCCTGTTCCCTGGAGGGCTGACTGAGCCTTCCAGCCCTTCTCTAGGCCCACAACTGTCCTGCTCTTCCCGCATTGTCTGGACATCAGCCCTACAGTCTCCTGCCCCAGCATCCCACAAGCCTGACCTTCTGATGGTCTGACCACAGGACTGTGCTGGCCCAGGACAGCCACCCTGCCCTCACTCAACAGGCACAGAGCGGGGCCTGGGAGGACTCGGGGTGAGGAAGAAATTCCACCCAACGCCACTTTCCTGCCTCATGAGTCAGATTCCAAAGTCTTTGCCAGTCAGGCTGTCTCTTAACTGTGGGACATGATTCCTTTGTAAAACAGAGGGCAGAACGAACTCAGCGCGGGGAGGGTGCTGACCAGAAAGGAGTGGTCTCGGGGCCAGCCCTTTCTCTGAGTTTTGCTTTTCAGTACTAAAACACAGCCACCACCTAGCTGTTAAGGAGGGTGTGAGGCCACCCTGCGGAGGGAGCTGGTGCTCATTACAGATGATATAGCCCAGGCTAGCTTTCAGGAGGTGTCTGAACTAGGATGCTGGCAGCCTTGAGAGCTCACTACCCAGGCTCTGCCTCCTTCCCCCTTTGGAAGACTGAAGAATGGCACCCTGGGCTTTAGCTCTCTGCTTCAGAGTTCGGGACCCTCTGGGTGTAACCTGCGCGGTCCCCAGAGTCCCGTGCTTAGTTTAACCTCTCCTGCTACAAACTTGAAATTCCTTATTTTAGGTCTTGGTTTGAAACAAGGAACCTCTCAGTTTCCTTACCGGATCCCACAAAGGGCAGAACCCGTCATGCTAAGGGCTCTGGTGGCCTAGCCCACTCTCCCTCCTACCCATTTTCCCAGGAGTGACTAGAGACCTGGCACCTGGCCCACAACACTGCCCTTGTCCCTGTCCAGTGCCAGGTGGACCGGAAGCCTCATATGTGGGAGGGGAAGCAGAGAGGGAAATCTCTGAGCCAGGGTTACAGGCGGGAAGCCAAACCGTTTCCGCAGGCCTGGAGGGGCTGAGGGGCTGAGTGTAGGGATAGGCCATGAGTGGGTCGTGGGTGAGACGAAGGGTCCTGGCATCAGGCCTGACCCCATGTTCCCAGGCAATAAAGACAGTAGAGTAGTTCCTGCCTCACCAGATTGTATGAGCTCAGAGATGCTGGGGTGCCCCTTGGGGCTTACTTAGAACACACTTGGCTCTCAGTATTCAGAAGCCACCATTTAAATAGGGTGGCCCTCTGCCTGACTGATCCTGTTCCACCCTGGCATAGGTGGCATCAGTGCAAAATAATAATAATAATAATGATGATGTTCTCATCCTAATGAGAATAGTGTCTTCTGGTGCCATTTTGAGTGACTGTGACTCAGGAACAGAGATGTATGTTACCCCGAATTCCATGTTCCGTTGCGGAAACAGTTTCATGAAGTTTTATAGTTTTGCGGAACATAAAGTCCTAAGTCCAGGCAAGTCTAAAATACATTGGTGGGGACATCAGAAAGGTGGGTACGGCAAGCTGGGGAGGACTTTCCTATAAGGTCTGAGAGGTTGAGAGCTTTGGGTTGGTAGAAGCTATGTTCTGACAAAGGTAGTCAGGAAATGGCTGTGTGAAGCTACAGCTAGCCCAAGATCTGCTGATTTTGGCCTCTGGGCCATCTCCGGAGGCCTGGTTTCTTTCTAGGACTTTTTGCTCATGGTAGAGAGCTGGCTCTCCATCCCATTAGAAGTCTCCGCACCTGTGCCCTTCTCCGTGCATGTCCAGGGTCAAGAGACTCCCTGGTCCTGGTGGGATCTAGACTACTCCTTTCTGAGAGTCAGTCTTCCTGCTTTCAGCCATAAGGAAATGCTGACCCAACCCTTAGACAAGGCACACAGAGATGCTTCTGTCCTGGCTTCTGGGTGAGGTGTTTACTGCTGGGTTGGCCTGAATAAATTGTATTTCTCAGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079442:ENSMUST00000102818:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(14.3=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(22.3=87.5)
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:
CTCCTTTCTCAGCACCGGTTG
R:
GTTGGCCTGGAATGGGTCAC
Band lengths:
344-1556
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