MmuINT0172769 @ mm9
Intron Retention
Gene
ENSMUSG00000021614 | Vcan
Description
versican [Source:MGI Symbol;Acc:MGI:102889]
Coordinates
chr13:89824684-89833106:-
Coord C1 exon
chr13:89827890-89833106
Coord A exon
chr13:89824798-89827889
Coord C2 exon
chr13:89824684-89824797
Length
3092 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TATTTTCCTGGACATGATAGGAC
3' ss Score
2.89
Exon sequences
Seq C1 exon
GTCGATTGAGTGATATGATTGTAAGTGGTCATCCAATAGATTCAGAATCTAAAGAAGAGGAACCTTGCAGTGAAGAAACAGATCCACTGCATGATCTGTTTGCTGAAATTTTACCCGAGTTACCAGACTCATTTGAAATAGACATATATCACAGTGAGGAAGATGAAGACGGAGAGGAGGACTGTGTAAATGCAACGGATGTAACAACTACTCCGTCAGTGCAGTATATCAATGGGAAGCAGCTCGTTACCACAGTGCCTAAGGACCCGGAAGCTGCAGAAGCTAGGCGTGGCCAGTACGAAAGTGTTGCACCTTCTCAGAATTTCCCAGATAGTTCTGCAACTGACACCCATCAGTTTATACTAGCAGAAACAGAATCGTCAACTACCATGCAATTTAAGAAATCTAAAGAAGGCACGGAATTGTTAGAAATCACATGGAAACCCGAGACCTACCCTGAAACACCAGACCATGTTTCAAGTGGTGAGCCTGATGTTTTCCCTACTCTCTCATCCCATGATGGTAAAACCACCAGATGGTCAGAGTCCATCACAGAGAGCAGTCCAAACCTTGAAAATCCAGTGCACAAACAACCTAAGCCTGTCCCTCTGTTTCCTGAAGAGTCTTCAGGAGAGGGTGCCATTGAACAAGCATCCCAGGAAACAATCTTATCTAGGGCTACAGAAGTAGCACTTGGTAAAGAGACAGACCAAAGTCCTACCTTATCTACCTCTAGCATACTTTCAAGTTCTGTGTCAGTAAATGTCTTGGAGGAAGAACCACTTACTCTAACAGGAATCTCACAGACTGATGAATCCATGTCTACTATAGAAAGCTGGGTAGAGATAACACCTAGCCAAACTGTAAAGTTCTCGGAGAGTTCTTCAGCTCCTATCATTGAAGGGTCTGGGGAAGTAGAAGAAAATAAAAATAAAATCTTTAACATGGTAACTGATTTACCACAGAGAGATCCTACAGATACACTCAGCCCTTTGGATATGAGCAAGATAATGATCACAAACCATCACATTTATATTCCTGCAACCACCGCTCCTTTGGATTCAAAACTACCTTCTCCAGATGCAAGGCCTACACAGTTTGGAATTCAAACAGCCACCTCTGAGTGGGTTTCCGATAAGTCTTTTGAAGGAAGAAAAAGAGAAGAAGATGAAGAGGGAGCTGTGAATGCAGCCCACCAAGGAGAAGTTCGAGCAGCAACAGAGAGGTCAGATCACTTACTTTTAACACCAGAATTAGAAAGTTCAAATGTAGATGCATCTAGTGATTTGGCTACCTGGGAAGGTTTTATTCTAGAGACAACACCCACAGAGTCTGAAAAGGAAATGGCAAATTCAACTCCTGTTTTTAGAGAAACAATTGGTGTAGCCAATGTGGAGGCACAGCCCTTTGAGCATAGCAGTAGTAGTCATCCCAGGGTTCAGGAAGAGCTGACCACTCTCTCAGGAAATCCCCCCTCTCTTTTTACGGACCTGGGCTCAGGAGATGCTAGTACTGGTATGGAACTCATCACTGCTTCTTTATTTACATTAGATTTAGAGTCTGAAACCAAAGTCAAAAAGGAATTACCCAGTACTCCGTCTCCCAGTGTGGAGATATCATCCTCTTTTGAGCCAACAGGATTAACCCCGAGTACTGTACTAGACATAGAAATTGCTGGAGTTATGAGCCAGACATCGCAGAAGACACTGATTTCTGAAATATCAGGAAAGCCAACTTCCCAGTCAGGAGTAAGGGATTTGTATACAGGCTTTCCAATGGGAGAAGATTTTAGTGGTGACTTCAGTGAATATCCAACAGTGTCTTATCCAACGATGAAAGAGGAAACAGTTGGGATGGGAGGTTCTGACGATGAACGAGTTAGGGATACACAGACTTCATCATCTATACCGACTACCTCAGACAACATCTACCCCGTGCCTGACTCAAAAGGACCTGACAGTACTGTGGCCAGCACCACAGCCTTCCCCTGGGAAGAGGTCATGTCCTCAGCTGAGGGGTCAGGTGAGCAATTAGCCTCAGTCAGGAGCTCTGTTGGTCCAGTGCTTCCACTAGCTGTGGACATTTTTTCTGGAACAGAGTCTCCATATTTTGATGAAGAGTTTGAAGAAGTGGCTGCAGTGACAGAAGCAAATGAAAGACCCACTGTTTTGCCAACAGCAGCAAGTGGAAATACTGTAGATCTTACAGAAAATGGGTACATAGAGGTAAATAGCACGATGTCACTGGACTTTCCCCAGACAATGGAGCCATCCAAATTGTGGTCTAAACCAGAAGTCAATCTTGATAAACAAGAGATTGGAAGAGAAACAGTGACAAAGGAAAAAGCTCAGGGACAAAAGACTTTTGAATCGCTCCACAGTTCTTTTGCACCAGAACAAACCATTTTGGAAACCCAATCACTTATTGAAACTGAATTCCAAACTTCCGATTACTCTATGTTAACAACACTGAAAACGTACATTACTAATAAGGAAGTGGAGGAGGAAGGTATGTCCATAGCGCATATGTCTACTCCAGGTCCAGGGATCAAAGACTTGGAATCATATACTACCCATCCCGAAGCTCCTGGAAAGTCACACTCTTTCTCAGCTACTGCTTTAGTGACTGAATCTGGAGCAGCTAGAAGTGTACTCATGGATTCCTCAACTCAAGAGGAAGAAAGCATAAAACTCTTCCAAAAGGGTGTGAAACTAACAAATAAAGAGTCAAATGCTGATCTCTCATTCTCTGGACTGGGATCAGGAGAGGCTTTGCCTCCTCTACCTACAACATCAGTGAATTTGACTGACATGAAGCAGATCATTAGCACATTGTATGCTGAGACATCTCACATGGAAAGCTTAGGAACAAGCATCTTAGGTGATAAAATGGAAGACCATGAAAGAATGGAAGATGTGTCCAATGAAGTTAGAATGCTCATTTCCAAAACAGGCAGCATCTCTCAAGACAGCACAGAGGCACTCGACACAACTTTGAGTCATACCGGAACAGAAGAACCTACAACTTCAACTCTTCCTTTCGTGAAGCTCATGGACTTGGAACGTTCTCCAAAGCAGACCCTCAGGTGGGAAGAGGAAACCCAGACCCATAGACCACAAACTATGAGTGGACTGATCTCTAATGAAAATTCTTCAGCATCAGAAGCTGAAGAAGCAGCAACTTCCCCCACTGCTTTTCTGCCTCAAACTTACAGTGTTGAAATGACCAAACACTTTGCTCCATCAGAGTCACAACCATCCGACTTGTTTAATGTAAACTCTGGAGAGGGATCTGGAGAAGTGGATACTCTTGACTTAGTGTACACTTCTGGAACTACTCAGGCAAGCAGTCAAGGAGACAGCATGCTTGCTTCTCATGGATTTCTGGAAAAACATCCAGAGGTGTCAAAGACTGAGGCTGGAGCTACTGATGTATCTCCAACAGCCTCAGCAATGTTCCTGCATCACTCAGAGTACAAGAGTTCTCTGTATCCAACCAGCACACTGCCAAGCACAGAGCCATATAAAAGTCCCTCAGAAGGTATTGAAGATGGTTTGCAAGACAATATCCAATTTGAAGGTTCTACCTTGAAACCTAGCAGAAGAAAAACCACTGAAAGCATTATTATAGATCTAGACAAAGAGGATAGTAAGGACCTAGGATTGACAATTACTGAGAGTGCTATTGTTGAAATTCTCCCTGAGCTGACATCAGATAAAAATATTATTATAGACATTGATCACACTAAACCTGTATATGAGTACATCCCTGGAATACAAACAGACCTAGATCCAGAGATAAAATTGGAATCACATGGCAGTAGTGAAGAAAGCCTTCAAGTTCAAGAGAAGTATGAGGGAGCTGTTACCCTTTCTCCAACTGAGGAATCATTTGAAGGCTCTGGTGATGCGCTTCTTGCTGGCTATACTCAAGCAATATACAATGAGTCTGTGACTCCCAACGATGGAAAGCAGGCAGAGGACATAAGCTTTAGTTTTGCCACTGGGATCCCAGTTTCTAGCACAGAGACAGAATTACACACTTTCTTCCCCACAGCGTCAACCCTGCACATTCCTAGTAAACTAACCACAGCTAGTCCGGAGATTGATAAACCCAACATTGAAGCAATATCTCTGGATGATATATTTGAATCAAGCACCTTGTCTGATGGCCAAGCTATTGCAGACCAGAGTGAAGTAATATCAACATTAGGGCATTTGGAAAAAACACAGGAAGAATATGAAGAAAAGAAATATGGAGGTCCTTCATTTCAGCCAGAATTCTTTTCAGGAGTGGGGGAAGTATTGACAGATCCCCCTGCTTATGTAAGTATTGGTAGTACATACCTTATAGCTCAGACTTTAACAGAATTACCCAATGTGGTAAGACCATCTGACTCCACACATTACACTGAAGCAACACCTGAAGTTTCCTCTCTGGCAGAGCTCTCTCCACAGATACCATCTTCTCCCTTCCCTGTCTACGTAGACAATGGAGTCTCTAAATTCCCAGAGGTTCCCCATACAAGTGCTCAGCCAGTTTCTACTGTCACCTCATCACAAAAGTCTATAGAGAGTCCTTTTAAGGAAGTCCATGCTAATATTGAAGAAACCATCAAGCCATTGGGTGGAAATGTCCACAGAACAGAGCCTCCATCCATGTCTCGTGACCCTGCTTTAGATGTTTCAGAAGATGAAAGTAAGCATAAGTTACTAGAAGAACTGGAAACGTCTCCCACCAAACCTGAGACTTCCCAAGACTTCCCAAACAAAGCAAAGGATCACATTCCAGGAGAAACAGTTGGGATGCTTGCTGGTATCAGAACAACAGAGAGCGAACCTGTCATTACTGCAGACGACATGGAGCTAGGAGGTGCCACACAGCAGCCACATTCTGCTTCTGCAGCTTTCAGAGTTGAGACAGGTATGGTACCTCAGCCCATCCAACAGGAGCCTGAGAGGCCAACCTTTCCTTCCTTGGAAATTAACCATGAAACACACACATCATTATTTGGAGAATCTATACTGGCAACATCTGAAAAACAAGTGTCTCAAAAAATTCTTGATAATAGTAACCAGGCAACAGTCAGTAGTACTCTGGATCTACATACTGCACATGCATTATCACCATTTTCCATTCTGGACAATTCTAATGAAACTGCTTTCCTGATTGGCATTAGTGAAGAGTCCGTGGAAGGCACAGCAGTTTACCTACCAG
Seq A exon
GTAAGATGTCAACATTGATACATCTGTTTCCAAGGCTGGGATCAGCCCCTTGGTTCTATATATCTGTATGCCTTTTATTGTAATGTGAAATTCATAGCAACTTTTATAGTGTTCAGGCCAAGTCAGAGTCAATGCAATGAGCGTAAGTATGGACACTTCTGTACTTTACAGACATGCTTTGCGTTTTCCCCCCTGCGTCTTACAGACAACATACTATTGTAACATGGACAAAGTGAAATAATGGTCTAAAGCTCAATGTATTTTCATCAACAGCTGAAATATTGCCTTGTTGCATGTCCTACAATATGTCATAGCTGTAAAAATGGGGAAAACCACACTTTTCTTTTAACCCTCCCCCTTTAGGATATGTTCTATAACAGTACTGAATTTGGCCAGTCCTTTAACTTTTGAGAATAGTTTTCTTACAAATGCCTTGTGGTTGGTTGTTCTATCAGTTATCCTTTGTACTGCAGTGTGATTCCTTGCTTGAAACATTTTATACAATTCTGCTAACTCAGCTCTTAGTCATAGTGTCTTTAGTATGTTTACATTCTACCTCTTGAGAAATTATTTCTAATTATTGACTATAAAAAAGCATAGAATTGATACTACTCCATATAGACCATTTCATTTAATCTTCACAAAATATCTAAAATCTCATCCTTTTACATTAGATCAATGTAAAAGGATATGACATAGGTATTTACAAAGGGCCAGTAATTTGCCCAAGGATGTGCAGACATACCATGGCAGAAGTGGTGTTTTAACTCCAAACAACCCTAATCTGATGTCCATGGTCTTTTTACTGCCCTTTTACTGGTTTTCAATATAGCATAAAACTAACAAGTGGAGTTTAGTATTTTACAAACAGTAAACTTGACATTTGTACTTAGTAGAGATGATAATTTTCTCAATTTAGCCTGAAAATGTTGAAAAGTAAGCTCCTATATTCCTAGAGTGCTATTATTTAAGTAGTAATAATAAGGGAACCCATAGATAACTACCATCATGTAATGACTTCCTAGGAAAGGAAAGAAAGCAAGAAATGAAGGAAGGGGAGAAGACAGGAAAGGAGGAAAGGGGATGAATTTTAAGGACTGTATTGGTTAAAAATATGTTTTATCTTAAATACTTTAGGTCATGGCTATTAAAATTATTTTTCTGTCTTATTAATATTACTGAGACACACATTTTACCTTGGAACTCAGAAGAATACATTTATTTGACACTTGATATTTTAATAATATCATCATAGTTTAATAAAATAATAACATAGTGTTTTGTGAATAAAATTGATCTAAGATAGTTGACACTGGGAATATTTTGGAGTATCACTATACTACAAAATAATGATAACATAGTAATCTGGCCAATACTTATTGTATTATCATTAAGTTGAAATGTACTTAAGAATATGGAAATAATTGGCAAATGAAGGGGAAACATCTCTGTATTATCCAGACTACAGTACTTACTGAGACATAGTGTTCTGTCTTTACAGAACTATCCCTGTACTTTAATCAGTAGATAGTCACCTGTGTGAGAGGGCCTGGCCTACCTGCTGCAGGTTTAGCTTTCCCAGGTCTACCCAAACTCCTTGGGGAAGAACAATGTGCTAAAAGGGCAGTCTGTCTCTTAGCCAGAACTTCTTCAAGTACACAGGAAAAGTCCCCCCATACTTGTCATGTGATCTCAGTGTGGTGTCTGGTGGCCATGATGGGGATAGAAGCAGTCACAGTACCATAAGGACACTCACCTAAGTATCCATTCAGATGTGCATGTGTCACAGACTGCACTCTTGTCACTGAGGCACTGCACTTTAGTATGTGAAAAACCAAGTGCTGGGGAGGTTTTAAGAATGTTTGGAGATACAGGAGAAAGTATTTTTGAAAAATCAAGAAAAATTTTAGAGATACTGAAGTATACATCTGAGTTTACCTGATTTTAATATGAACTAAAAATGGATGTGTAGATTCATCAGGCCTGTCCAGTTGCCCCGATTTGACCTAATGCTGAATAAGGTTGGCTTTGAACTTCTTGTCTGAGAATGGGTCACGTTTCTTCTATAGCCGATGTCTCATCAGAAATTAGATATCTCTTCATGTGCATACATTTCAGGATTTGGGTAATGTAAGATTTTTGAAACTGCAGTTGTATACATATAGCATCTATTACTTTAAATTGTTTTTCAAAACTTTTGAGTTTCATTTAGATCTCTGGACACTTTTGGAGTTAAATATTTCTGAAATAATACTCAAGTTCTCCATAAAATCCACATATCTAGACAATGTTACAAAATAAAATATATGTTTTAGAGGTATAAAGTATTTATATTTAAAAATATCCCCTAAAGTATTATATTAAACTAAAAATTTATGGTTTGAGCTTTTGTATCTTTCTCTAGGAGGGTTAGTTTTATTCATATTTTATTAAGAACATTGTAATAAAATTTGGGGCTTCATTTTAAGTGAGGTTTTGTATTTGGAGTTGTTTTTATACAGTAGAGCTTAATCCATGTGTTGCTTTTCTTCAAGTATAGTTTAAAGGAGTACAGTTGGAACGTGTTTTTGGAAAAGGCATGTTAATGTAGCAGAAGAAACGTCAGTGCACACTTTGGAAGACAGTTTCTGAGCATTAAGTGGTAAAAGGCAATAGTAATTCAAACACTGGTAACAAGCCAATCTGCTAAAAGAATGCATGTTCTGTGTACCCAGCCATTTCACATGAACTAACATCGTTTAAAAAATACATTTCCATTCACTGTGCACATATGTGTAATCATTTTTAACTAAAATCAATTGCCATTATCATGCCAACTAAATCTGCCATAGAATATGTTAGTTGCCAGATGTGGTATAATGTACTGTTTACAAATAATGATGATTGAGTTCTAGAAATGAATAGAAGGGATTTGTAACAATTAGTTATAATGCCAAGGAACACTCCAGAGTAAATTTAATTTTATATATAGTATACCTATAAATTGCTATGGTAAAGCTTATGCTATGGTAGCAATAAGTGACATTTTGTGCTAAAATATATTCAAATCTGGGAGAAAAGGCTAATTGTTTTTATTTTCCTGGACATGATAG
Seq C2 exon
GACCTGATCTCTGCAAAACAAACCCATGCCTCAACGGAGGCACCTGTTATCCTACCGAGACTTCCTATGTGTGCACCTGTGCACCTGGATACAGCGGAGACCAGTGTGAACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021614-Vcan:NM_019389:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.746 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: