MmuINT0000854 @ mm9
Intron Retention
Gene
ENSMUSG00000026831 | 1700007K13Rik
Description
RIKEN cDNA 1700007K13 gene [Source:MGI Symbol;Acc:MGI:1916577]
Coordinates
chr2:28317521-28320735:-
Coord C1 exon
chr2:28320657-28320735
Coord A exon
chr2:28317955-28320656
Coord C2 exon
chr2:28317521-28317954
Length
2702 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CTTGTTTGTTTGACTTTCAGAAA
3' ss Score
8.85
Exon sequences
Seq C1 exon
GACCAAGGAAGCTGTTTCCATGTACAGGACCAGTAACCAAACCTACGGAAGCAGAGCCCCCACGGTGCATGAGATGCCA
Seq A exon
GTAAGTGCAAGCCAGGCCTGCCAGGACGAGGGCCATCTGGAAAAGCAGACTTATGAGGAGTCAGAGTTGGGAATCAGCGTCCCACGTTGTAAATGCATGGCACCTCAAATCGAGTTAGGACAAGGCGGGGCAGAGAGATGATAGAATGCAATTTCAAAGCAGAATAGATTGTAGACAGGAAAGTCCAAGTAAACTTGCTTCCACGTTCTCCTCCCCATCAGACAGGCACGCACACCTTTGCCCGGGCACTCGAAGGCCAATTAGTGAAGTCAAGCGTTCATACGAGTGGCAGAACTCCTCGGAAGAGCCTGTCCACGGAAAGAGTCTGTGTTCCAAAATCAGACGCAAGGTGTTTCTGTGGGAAGCAGGAACATGGGAACTGCTGCCCATACCTTCTTAAATACATTCGCCTTGTCTCTGTGTGGGGGTACGCCATGCCACACGTGGTTGGAGGTCAGAGGGCCACGTGTAAGAGCTGGTTCTCCTTTCACCAGGCTTGGTAATAAGTGCCTTTGGTCTCAAGTTAGCCAGGGCTAGTTCTGAATCAGTTCAAAGCTTTGAACTGCCTGCACCTCGAAAGTGCTGGCTTAAAAGATGTGCAGTGCCAGGGCTTTGCAGACGTTAGACGTGGTGATCTGTCCACTGAGCCACACCCCTGGTTTCTGTTCTGCCTTTGTAAAAGGCCACGGAGAAGAAGCTGCTCTTTTCAACAGTGGTGCTTTCACCCAGGTTAGCAGGTCATGGGCCACAAGCCGCGGGTATCAGAGGCAAGCTAGGGGGTAGGTATTCCGTGCTTCTTAGTCCTGTTCTCTGGGGTTGACTTGTCAGCTTTCTGACTCAGTCCACTGCACCCTGTGAGCAACTCTTAGTATTATTCTGTCAGCTACGGCACTGGTGGATATTTATTATTATGGACTGTCAGAATGCATTGACTGTGCAGAGCCAAGAGCGGGCAGGCCCCAGTGCTCAGTGCACAGCTCAGGTATTGGCCATCAGCTCCACCTGCAATACACCATGCAGACAATAGGGGGAGCTGTGTGCATTGGAATGGTATTTGGACACTTTTTTTTTTTTTTTTTTTTTTTTTTCTCAGAGACAGGAGTTCTCTGTGTAAGTAACATCCTTGGCTGTCCTTGAACTCTTTTTGTAGACCAGGCTGGCCTCAAACTCACAGAGATCCGCCTGACTCTGCCTTCCAAGTGCTGGGGTTAAAGGCATGCTCTACCACACCCGGACTTGGACACTATATTTTATGTTCAGTTTCCCAGGAGATCTCAAATTTGCCTCTTGAAAAATGCCTGAAATAATTTCTCTTTGCTTTTCCTGCCAAAGAGAGAAAACATCAGGTGATCTTGGCCCAGGGTGGTCTGAGGACAGGTAGGACACTACTACCTGGTGGAGGTTGGTCTGCACACACCACATGTCCCCCTGTCATCACTGGAGTTCCCGGACTCACAGTGGCCACACTCAGCAAGAACTGAGTGCTGCCGGGAAGTGGTGGCACATGACTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTTCAGGACAGCCAGGACTACACAGAGAAATACTGTCTCGAAAAACAAAAACAAAAACAAAACCAACCAACTAAACAAACAAAGAACTGAGTGCTTCCGGCCTCAGCAGGGCAGCCCTTCCCATACACCGGGCTGGTGGTGCATAGTGCCCTTTTTAAAGCACCTGACAGAGGATTTTGGCTCATGGGATAGAAGCTCATTGCTAAGGCTTGGAGGAGTTGACCCTAAAAGGTCTGCATGTTAAAGGCAGGGTTACTAGTGTGTGCTATTGGGGTGTGGGACTTTATAGGAGTTTTCAGGGCTCTGGAGGTGTGTCCTCGAGAGGGATCCTGGGATCCAGCCAGTCCTCTCTCTGCTTTTCTTCATGGCCCATGATGTTTGCTCTTATCACAGTTACCCAGCAACCCCAGCCAAGGGCCAAAGCATTGAGGCTGTATTCATGAACTGGAGCTTCAGAAGTGAGGCCCACATGTGTTCTCTGTCTCTGACTCTCTCTCTCTCTCTTTCTGAGAAATGGTTTTTCTATGTAGACCAGGCTGGCCTCAGTCTCACAGAGACCTGCCTCTTGAGTGCTGGGATTAAAGGTCTGCCCCACCACACCCAACTATTTCTCTTCATAAGTTATAAGTATTTTGGAAGAGTATGGCAGACACTGCTGTAGAGTATTGTGACTACACTCACAGAGAAGGTTGAAGGGTACACAGGCCTAGTGTGGCATGGCTAGCAGGAGTAGACCTCAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGTCTAACTCTGACCTAACTTCAGGTTAATGATTGCTGTCACACCTAGGCTAGGCATGGAGCTGCGGCATTCAGGTGATCCTGTAACTTCTCTTGCTGTCCATGTGGCGTGGGAAGGAGGCAGTGTTAATCATATTAGACATAAGCACACACTGGCATGGTTGGATGGCAAAGGGAGACCATCTTGCTCACCTTGGTTTCTGGGCTTCCTAGCACCAGAGGCTGTGTTTTCTCACAAATTCTCACTCTTCGTCCAAAGAACCAGTTGGTGGGACTGCCTGAGTGTTACTACCATGCACCACTAATCCTCTTGTTTGTTTGACTTTCAG
Seq C2 exon
AAAGTATTTTATCCATCTTCAAATAAGTTTTCCAGACAACACGCAGCTTTTGGAATGTTCCAGAGTCATAATATTAATGTCACCCTGGAGAAGAGCTTAGTGACCGGGCCTGACAATCACATCACCCACTATGACCGTTTGAACTTTCACCCCAGTTACAATGTCAACAGGCCGTCCATCTGTGACTAAGGGAGCTGGGTTCCTGTCCTCAGGGCTCTCCTGACTCAGGGCTGCTTCGGGGAGCACGGATGCCCTTGATCCTTGACAGGTGCCCTATTCTAAAGGCTTGGATCTCACTGCCTTCTCAGAAAACACTTTTCCTTTCCAGAGGAGAAAAATGTGCAAATAGAGCCACAATACCTTGTGTTCTGCATTTCACACAGGAAAGATGCTGACAGCATCTTTGTTTTATTAAAAAGTTGCCACAGCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026831-1700007K13Rik:NM_027040:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.815 A=NA C2=0.260
Domain overlap (PFAM):
C1:
PF148921=DUF4490=FE(24.5=100)
A:
NA
C2:
PF148921=DUF4490=PD(30.2=50.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: