MmuINT0173015 @ mm10
Intron Retention
Gene
ENSMUSG00000024076 | Vit
Description
vitrin [Source:MGI Symbol;Acc:MGI:1921449]
Coordinates
chr17:78619557-78622867:+
Coord C1 exon
chr17:78619557-78619660
Coord A exon
chr17:78619661-78622640
Coord C2 exon
chr17:78622641-78622867
Length
2980 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
AAATTTTCTTCTTCTTCCAGGCC
3' ss Score
9.84
Exon sequences
Seq C1 exon
AGACAATCCTGCTACCCAGTTTAACCTCAAAACTCACATGAATTCTCAAGATCTGAAGACAGCTATAGAGAAAATTACCCAGAGAGGAGGCCTTTCTAATGTAG
Seq A exon
GTATGTGACCCAGATTCGAGTAATTCTTCCTGGTTACCATGGTACACCTTCAATGTGGCTGCCTGATAATATTCTATATTGGAGGAGGTGGAAAAAAATAACCCATCAAGAAATGACACACAGCCTCTGTATCTTTCCTAATGTATTACCACAGATTCAGGTACAAAGTGGTCAGAACTCTTGTGCCTCCGACTTCCTATCCATCTGGTTCTCTGGTTGCAGCCATATCCCTCAGGCCTAGAAGGACAGCTATTGTGACTACTTCATGGCTGGCCTATAAGCTGCCAACCAGTTAGTACCAATTTTTTGTCACCAGTTCTACTCAGGAGGTCCTTTAGGGGGTTCTTGCTCCCATCAAAGTTGTTGTAGTGGTGACTTTGTGGAGAGGGGAGTCCCGTGTTTGAAAGTGGGTCACCTGTAGTGTCTGAACCTCAGGAGGGGGTGGACGCCACTAGAAGTCCAAAATCTCGTCCTCAGTGGGACAGCTCCAGAAGTCCCATTTTGCCTGGTTTAAGCAGAGGAGGATGGACAACAGGGAATGTTCCCACCCCGGCCATGCCCAAAGGCTGGAAGCAAGGCTGGCTGTGCTCCACAGAACTTCCACCGCTGTAAGGCCAAAGAAATCCAAGTGCAAGCTACAGTAGTTTGTGTGGAGGAAGCAGTGAGCAGTACGAAATTCCACAGAGCATCTTTGGAGTTACAGAGCGTCTGAATCACTAGTTCCCTCCCTCTCGTTATCTCTGTAGTGACCAGAACATTACTATTTGGCAAGTGCAAAATCCTTCACCACAGTGCAATGCTAAATAACCATTGCCCAGCCACCAAATCCATCTCCATAAATCCACATTACCTGCATCGTAAGCCCGATAGAAGGGGGTTGCATATTTGTGCCCAACTTATCACTTACACAAGCAAATTCGCAATGAGAAAACCCTGGCAAAGCATTTGGCTCCTCTGATAGGGTTAGAGAGGTATCCTAACCCCATTGGTGAGCATTGTCAGAGAGTGATATGTTCTCACTTCACCTCTGGGGCATGTCGGAGTTCAATGAACATGGTCTATGTAACCGAGGCACATGGGGGTTTGGTCTATGAAGGAGCATAGCAAGAACTAAGGACGCAAATGGAACTGGAGTGTTCAAAATGACCTCTCAAGGCATAGTGCCGAACAAGGGATAGTTAGGGCACTGTTACCTCTTCCAAGACCAGAAAACCAGCTTTCAAATTCTGTCAACAAGGCCTTTCCATGAACCTGCTCCAGCCAGAGTGTTGCCATGGTGACAGCTCACCGATCCAGCACCATGCCCTACACTCCCCATCTACACACATACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCTCCACCCTTAACACCTCAACACCATCAAAACTACCAACCAATCCCAGTGCAGAGAAACCAAAAACCGCCACAGTCTGATCAGCAGAAGTAGCAGAAACAAACTCACAGTCCCTGCTTAGCTTTCATCTTCTAAGCCTGGATCAAACGCATCAGCTTAGGGACCTAAGACAGAAGACAGAAGCATGAGGCACAAAGGACTGTGGGTAGTGCAGTTTTCAGGTCTCAGCCTCTTGTTTCCAGGTGAACGGGATGTGTGTGTGCTAAGCTCCGATTCGCTCTGGCCTCCATATTTAAGATTGATGGGGGTCATGGGAAATCTTACACACATTGCTATGGGTGCTTAATATTGTGCTGGAGAGACTGCTGGGGGAACTTTGAGCCTTGAATTCTCCACAGCCATGGTTTCCCATTAACAACAGGGTCTCTGCAGCCAGGTCACGTGGCTGTCTGAGAAGCTTCTCTAGCAACTCTGAATGTAACCGCCTGTTGCCTTGAATTGACAAGAGAAACCGCCAGGGGAGCCAAGATGCTGACTAAATCCAGCGAGAGTGAAATTATGTTAATTCTAAACTCTAAACAAGGCAAATTGAACTGTAACTGAAATGAGAACCCATTTGGGAATCTCCTAGAAACTGTGGCCTTTTACATATTCATATAGACAAAAACTCCCTTCAGGGGATACACACACATACACACACACACCCCTCATACACACTAGGATCCATAGACTCTAAGTTAAGAGCTATGATCTATGCAGCCATGCTAACTCAGCCAAAAGCAGTGCTCAGGAGGACCTAGGACATCCAGCAATACAATTAGGAAAGTTCTTCTAAACTGGGCAGTAGGTTGACCTAGTTGTCCTGAGACTCTTGCACAGTGTGAAATACACACGTGAGAACAGCATGCCAGAGACTCCACTATTCCTCATGACCATGGCACCCAGACCCAGATGGAGAACACTGTTGGTCTGGAACCGTAGGCCCCAGGACGGTGAGTGATCTACAGAGCTGACCTGTCACAGCTAGGCCTTGAACCCAGCCTGTTCATCCCTAGGAGATACATCCCACCCACAGCCAGCCAGACCTGCGTTCTTGGTCTGGGACTGGAGAAAGGGCCCCTCACTCAACAGCTGGAGCACTGGGCCCACTCAGGCTGATAAGAGTCTGATACCCAGGCAAGAAAGGGGCCCTTTTGATCTCATGGAAGCCTTTCTCCCCTGCTTGCTAGACCCCAAAACTTTCTCTTTCTAAACAAGAGACAATTAGAAGTTCTGGGTTTTAAAATGAAACTGAGGAGAGACTATGACGGTTGTACAACATTCTGAATACATTTACTGCTGATATATATATATATATATATATATATTACATATATACTTATATGTAAGTATACATATATACTTACACACACGCATATATATATATACATATATATATATACATACATACATATATTCATACAACTTGAGACTGAATGAGTCTAGGAATGAGACTTTCCTAGACTTCTTTGTGCCGCTGTAAACTGTTCTTATATTCATAATTACTACTATCGTTTCAAGCACAAATTTTCTTCTTCTTCCAG
Seq C2 exon
GCCGTGCCATCTCCTTTGTAACCAAGACCTTCTTTTCCAAAGCCAATGGGAACAGAGGTGGTGCTCCCAATGTGGCTGTGGTCATGGTGGATGGCTGGCCCACAGACAAGGTGGAAGAGGTGTCACGAGTTGCCAGAGAGTCTGGGATCAACGTCTTCTTCATCACCGTCGAAGGGGCCGCCGAAAGGGACATACAGCATGTGGTGGAGCCCGGTTTTGCCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024076:ENSMUST00000024880:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=FE(19.7=100)
A:
NA
C2:
PF0009223=VWA=FE(42.1=100)
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:
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