MmuINT0006126 @ mm9
Intron Retention
Gene
ENSMUSG00000056004 | 9330182L06Rik
Description
RIKEN cDNA 9330182L06 gene [Source:MGI Symbol;Acc:MGI:2443264]
Coordinates
chr5:9441634-9445553:+
Coord C1 exon
chr5:9441634-9441807
Coord A exon
chr5:9441808-9445363
Coord C2 exon
chr5:9445364-9445553
Length
3556 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTGTGGCTTTGCTTTCCTAGGGG
3' ss Score
9.02
Exon sequences
Seq C1 exon
GACCACTCGCTTTGCTATAGCGACTGCTTTTTCTACCATGAAAAAGAAAACCAGACTCTGCACTATGACTTCCGCAACCTCAGCAGTGTAGGCTCGCTGATGAATGGCCCCAGCTTCACCTCCAAGGGAACGAAATACTTCCATTTCTTCAATATCAGTTTATGTGGACATGAG
Seq A exon
GTGAGTTCTGTCTGTCCGCGGTGAGATGGATCTCTATTTGTTTTACGATAACTGTGTTAAATGACCGATAACACCTGCACGGCAATCAGCAACTAATGTCAAGAATGTTTTGAAGTCTTGTCACTTCCTAGCCTGTTGACAGCTTTCTCTATCAGGATAGTCTCACCTGGTCAGATTGCCAGCCAATCTGATATCTAATCAGCTGAACTGCAAGCCTTATAGGTATGGCTTGAATACATCGAGTCCTTCCCTCCCTCTCTTTCTTCCTGAAAGTGTGAAAGGATAAAGTGGTTAAACTTGTTAATCTCACTTTTTAAAAATATAGGTAAGGCGCTATGATGTCAAGCAGCTTATTGTGTTAGTATTCTCTAGGAACAGAAAGAAATATGTACATAAATGAAGGAAGATTTATGTGAGGGACTGATGTAAATAATTGTGGTGCACGAACCCCCTATGATAGGCTCGCTGGAACTGCGCCACCTTGCTGGGATGCTACCAGTATGACTCAGCCCAAGTACAGAGGCTTTAGAATAAGAGAGGGCTGAAGACTGAGACCTGGGCCTGTCGCTTTAAGTCCCAAGGTCAGAACACCCGATGTCCTAATGTCTGTGGCAGGCTCAGGAAGAAGGCATTCTTGCTTCTGTCCCTTTGCTCTATCTGGGTTTACCCAGTTGAGTGATGCTATGATTCATATTCATAGATCTTCCCCTCCCTCAGGCAAACAACTCACATACTAGTCTCCTAGGAAGCACCCGTACAACACTCTGTGAACTCGTGTTCTGCCAGTTCTCAACTTACCTTTTCTACCTATAACATGAATTCTGGTTATATTTTTTAAAGGGGAGAAAATACCAGGAGGAATTCTGCCAAATTAAAAAAAGAGATACACAGGATCAAATGTTAATTGATAAAGTAGCCACTGCTGATAAATATGGTATTTATTTGGTGGGATGAAAGAAGTAGAACTTTTCAATGGGAGAATATTACCACTGTAGGTGCCATATTTTCATTGGTGTGTGAGGTTGTAGTTTGGAGGTGGGGCACACATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGAGAGAGAGAGAGAGAGAGAGAGGGAGGGAGGGAGGCAGAGAGAGGTAGAGAGAATATTCATTATATATACCATTAACAAAGTCAAAAATTAATGTGTAATGGGCAATTTTTCCTTTTCATATTTACCCCTATATATCCAATCATCATCATTATGAGATGCTATGAGAAACTTGTTAAATGAAACGAGAAAGATCTGGTTCCCACACAAGCTTTTAAATAAGATACATATGATTTTTGTTATCTGAATGTGCTGGCTAGCTTTTTGTTAACTTCATACACACTAGAATCGTTTGGGAAGGGGGTTTCTTAATTGAGGAAAATGTCTCTGTAAGATTGGTCTGTCAGGTATTTTCTTCATTAATAATTGGCTCAGGAGGTCCCAGCACAATGTGGGTGTTGCTACTTGTACACAGAAAGCAAGCTGAGCAAGCCGTGGGGAACAAGCCTGTAGCAGCGCTCCTTCATGGACTCGGAATCAGTTCCTGCTTCAGAGTAACTGACCCGCTTGAGTGACGCCCTGACATCACTGGGTGATGGACAATAAGCTTTAAGATGAAACAAACTCCTCTCCAAGTTGCTTTTTTTTTTTTTTTGAAAATTTTTATTAGATATTTTCTTTATTTACCTTTCAAATGTTATCCCCTTTCCTGGTTTCCCCTCTGAAACCCCCTATGCCATGCTCCCTCTCCCTGCTTCTATGAGGGTGCTCCTCCACCTACCTACCCAATCCTGCCTCTCTGCCCTAGCATTCCCCTACACTGGGGTATCGAGCCTCCGCAGGACCAAGGGCGTTTCTTCCCATTGATGCCAGACAAGGCCATCCTCTGCTACATATGCAGCTTGAACCATGGGTTCCTCCATGTGTACTCTTTGGTTGGTGGTTTAGTCCCTGGGAGCTCTGGGGTGTCTGGTTGGTTGATATTGTTGTTCCTCCTATGGAGCTGCAAACCCCTTCAGCCCCTTCAGTCCTTTTTCTAACTCCTCCATTGGTGGTGTATTACAGCCATAGGACCCTGTTTAAGACAAAGGACTTCTCAGGACCTGACTTTACAGGTGGTAATTCAACACACTTATTAGGTTATCATTCCACTTAATAAAGGAATGCATAATAAATACCTTGATATGAAGCAATAAATGAGATTGGTTCCATTATCTTTTGTATTTCTTAATACTATTTTTGTATACTATCTAATCTTTCTGTCTTGTTTAATGCCCTCATTCATATTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTTTTTCTCCCCATCTCTCTCTCTATGCATGTGCATGTATATGTGTGTTCTTGAGTGTGTATGTATGTGGTGTGTGGTTGTGTGTATGTGTGTGTGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTGTTTTATTTTCTTTTGGGTGAGTAGCCCAGGGTAAGCTACAACTCAATATATAGTCCAGGATAACCTCAAACTCATGTGACTATAATAGGCAGGAGCTAAGCCCAACTTTTTGTTACTGTTCTCACTTGTTTTCTTTTAGGCTTTGTCATTTTCTCTTCACACCCCCCCAGACTTTTAGCCATTTTTTATTATTTTCTTGGCCACAACAATTTAGTAAAGATCTATTTCCCCTGTTTTGTGATGAGAAAGCCTTATGGTGAGAGAAAATTTATATGTTAAAATTGCTAGTTGTATTAAAAATGAGAACTATTTATGTTTCATGTCTGTGTGTATTGACTTTAAGGTCAATAAAATAGCTTTCCAATTTTCTTTTTATATTTCTTTGTAAAAATTATAGAGCAAGCTATAGTTCTTGCAGTGTATTTAAACATTATACAAATACAACCCTCCTCTGGATGAAAAGTTAACCTCTTGTTTACTTTTATTCTTTTAAATTATTTTATAAACTGATATACCACTGTGTCCAAGAGTAGGTTACTAAGATACAGTGGTGATCAGAAGTCTAGAGTTTGGATGCCCTAGGATTCTTTAGCAATAAAGATTTTAGGCCTTCTACAACCATACTCAGACTCATGAAGGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGAGTTAGAGTTTTCTTCCTTGGCATCCAAATCTTCACCAGCAGTCTGCTGCCTCCCCTGAATGCCTTTGAAGTGACCATTTCTTAAATGATATTTATTTCCTGGAGTTATATGGCTTCCATCTAAAACAAATGATGCTTGTACTAATAGGACCAGTGTTTTTGGCTTAGCTTAACTTCATCAACTCCCACCCTCTATTGAACATTGGAATTGCCTTGAGACTGATGCCTGGGCATTATCCCAGAACGTTTAAATGAGCATCTCTGTGGTAAGGAGATAGCACCCAGTCTGATAAAAGTCACAAGCTAATTGAGATTCATGTTAAAGACTGATTATCAGTGAACCTTTTGCTTGTGGCTTTGCTTTCCTAG
Seq C2 exon
GGGAGAAAGATGGCTCTCTGTACCAACAATATTTCAGACTTTACGGTAAAGGAAATGGTGACAGGGTCAGATGATTACACAAATTTGGTTGGAGCATTTGTATGCCAGTCAACTATTATTCCTTCTGAAAGTAAGGGCTTCCGGGCAGCCCTGTCGTCACAGTCTATCATTCTGGCAGATATGTTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056004-9330182L06Rik:NM_172706:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=PD(15.7=13.8)
A:
NA
C2:
NO
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:
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: