MmuINT1035944 @ mm10
Intron Retention
Gene
ENSMUSG00000097769 | Snhg4
Description
small nucleolar RNA host gene 4 [Source:MGI Symbol;Acc:MGI:4937091]
Coordinates
chr18:35554427-35556691:+
Coord C1 exon
chr18:35554427-35554461
Coord A exon
chr18:35554462-35556615
Coord C2 exon
chr18:35556616-35556691
Length
2154 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTTTCTTTTTTTTTTTTTAGGAT
3' ss Score
13.77
Exon sequences
Seq C1 exon
TGGCCAGCTGCCAGTTTGAGGCGATGTCTGCCCTG
Seq A exon
GTAAGTACAGTTCGGCTAGTTCCGGTTTGCCCCAGCTGTAGGCAGCTACCTAGGTTTCCTTGTACCTAGGCAAGTGTTACACTGCTGGGAGAACAGCAGCCAATAGCTGGTTGGCATTCTGGGCCTGGTTCATGCCACCTCTGTTGTTAACTATACCAGGATGTCAGCATAGTTGCTTACCCAGGAAGAGAAGCGCAAGCTCTGCAGGAAGAAACCTGAAGTCCAGATCTTCCGACATGGAGGTTACTTAAATCACAACTTGGAAATGGAACTGAGTAAAAGCCACTGAGGGAAATAAATAGGAAAAAAAAAAGTCAAGATTTAGTGCCTGTAAATGGTTGGGAGCGGACCTGAGGCAGTGGAGGGAGTTACTAGACTGCACGTTCACTAAAAATAGGATGTTTCCTCGCTCCACAATAATAAAAGCTAAGTCATGATCCCCTTTAGTGAGCTCCCTGTTGGGAATATTGAGTCTGGTGTTGTAGTATGCAGGGCCCCTTCAGACCGTCCAGGCAACCTAGATGCCCAATCTCTATTACTATTCTGCTCTCTAGCTCGTCAATAAATTTATGCATATTAATTGACCATGGGGTTCTGGGAACTAGCTTAGGTCAAACAGTACAATGAGCAGTTAGGCTCCCCCTTTTCTGTTATTCATGATGATTTTCTAAGAAATGCCTCAATTTTAGGCAAGTAGTGATCACTGAATGAATCTGGTGTTTAATAGAGCCAACATAGTTAGCTTTTGTGAGAGCATCCTGGTTTCCACAGGGAGACATAACCTTTACCTCCCTCATATCCTGAAGGGTTGGTGGCAGCCCCCACCTGTGTCCTTCCGTTTTCCCTGTGGACATGGGTGCTAACCAGGCTGCCTTACTTAACACCTACCTCGGCGACCCAACAGGACGCCCCGGGACTTGAGTAGCTCAGGGATAGTTGTAGCTGAGCTATACACAGGCTTCCTTAACCAGTTCCAGAAGTCTCTTACCTGACCCCCTGAATGTTTTTGGGGGTGAAAGCGCTTGCCAGGCCCACCAAGCACCCTAGGTTGAGCATCTGCTGACATTCCCATCAGTAGCCTCTACATTGCTCACCTTAGCTTCATCATTGCCCTCCCATGTACATCAATATCCCTTTTGCTCCTCAGTGTAGTACCTAACGCCCCCACCCCCTAACCAGTCAAGTTCTTACAGGAAAGTTACTATCCCATATTACCCACTCCTAGTTCTACCACTCTATCTACCTGCTCTTTGATTGAGGCCCATAATTACTTTACTACTGTTCCTTAATGGCACCAGCTTAGCCCTAAAAATACCCTCCAATAGGTCACTGAGCCTGCCATACCTTTGCGCATCCTTCTGATGCACTAGTGTTAACATAACTTTCCAGGTTAACATAACTCTTGCCTTCCTGTCCATCAAATTCTTTTAAAAAAAAATTTCAGCCAGGGCGATACAGAGAAACCCTGTCTCAAAAAGCCAAAAAAAAAAAAATTATGTATGTATTATACTTATTTTCTGTGAGTACATTGTTGCTGTCTTCAGACATACCAGGAGAGGGCATCGGATCCCATTACAGATGGTTGTAAGCCACCATGTGGTTGCTGGGAATTGAACTGAGGACCTGTGGAAGAGCAGTCAGTGCTCTTAACCTCTGAGCCATCCCTCCAGCCCCCATCAAATTCTTAATTCTTCCTTGACTCTGAACCCACTTGTAGCAACTTAGAATAAAGTCACTAACTAAACCTTATTTCTAAACTCAGATCAGTTCCCCAGCTGTTGTTGTCCTGTACCCAAAATAAAACTCCCCTATCTTTGCTCTTCCTGATCCCTCTCTCAGGGAAGATGTGGGCAGCAAGACACCACAGTTTCCTATTAATCTACCTCTTACAAGGACTCAGTTGAGCCTTGGAATGCTTTGTGTGGGATTTGGGCAAGTGTTAATGGTGAGTAGTCTTCAGACTAGTGGTGATCAGAGGGTGGTAGCTTGAAGGCAAAATTGTGTGTGGAGTTTGGGACAAGAGTCATTTCTCTGTTTTCAAATGTGTGGGACCCAGGGAAGGGCTGAGCTGGTTATTTAAGTGTATAGTGCATTGTTGAGGTACTGTGGGTTGCTAAAGCTTGTTTCCTTTTTTTTTTCTTTTTTTTTTTTTAG
Seq C2 exon
GATGACTTGAAAGTAGGGTGGTCTTCACCAGGCTAAAAGAAGTAATGATCCATAACAGGGTGCACTGTGGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000097769:ENSMUST00000181664:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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
- 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