MmuINT0001098 @ mm9
Intron Retention
Gene
ENSMUSG00000038987 | 1700019L03Rik
Description
RIKEN cDNA 1700019L03 gene [Source:MGI Symbol;Acc:MGI:2447809]
Coordinates
chr2:32636874-32639925:-
Coord C1 exon
chr2:32639741-32639925
Coord A exon
chr2:32637146-32639740
Coord C2 exon
chr2:32636874-32637145
Length
2595 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGT
5' ss Score
7.85
3' ss Seq
TCTGCCCTGACCCACCCCAGGTA
3' ss Score
7.29
Exon sequences
Seq C1 exon
AAGTGGTTGCCATCAGCCATGGCTCCAAAAAAGAAGCCAAACAAAGGAGGCAAGGAGATGCAGGGCAAGAAGATAGGGGGCAAGAAGGATGCCAGTGGGACCAAGACTCCAGAGTTGGCCATGGTGGAGGAGCTGAAGGAATTCTACCACAAACAGATCCAAGACCTGGAGGACAGGCTGGCCCG
Seq A exon
GTGGGTGGCCAGCAGGGAAGCTAGTGCTACCAGGCCAAATGCACACAGGTTCAGATAAGGGCCTTAGACCTGGGCTCTGGCCAGGCCCTATCCTTCCCTGCTTCATTTACCTCAAGTAACCAGGTAACCCTGCGAGTGCTGAGAGGGTAAGGGGATTCCCAGAGCTCGGGGAGCACACTGCTAAATCCCAAGTAACACCCCACCCCCACTCTGGTCCACCCCCACAGGACGGCACTGTAAACATTAGAAAAGTGTAGTTTAATTGGTGGAAGAAATTGAAAATGGTTTTCCCTGGTGACCCAGGAGGACACCTCATTCCCTAGTCCCTTATGCCAAGACCCTGGTCTTGTTTCTCCAGGCTGGGTCTGTTTCCCTAAGTATTTGTTTTGTTTTAGAGACAGGATATTACTCTTTAGCCCAGGATAGCCTCAAACTCATGTTGATCTACCTGCCTCAGCCTCCCAAGTGCTGAAATTATAAGTGTGGACCATTATAGGTTCCCAAATGGGAACTAAGGAAGGGGATTTTCCTACTCGTGCCACTCCCTCTTGGGGCTAGGTTCCTTTGTGACAGATAGCAGGGAGGGGTCCTTCTTAGCATTTAGAGATACTATTTGCTTATTGTTTTCCCTACTTTAATACTAGCTTTAGGGCTGGGGAGAAGGCTCAGTGGCACTTGCCCCTCATCACCAGGACTCCCAAGGTAGAGGAATAGAACCAATTCCTGCAGGCTGTCCTCTGACCTCTGCTGCGCACACATACGCATGTACACACATAATCAATAAATCAGACACAACAAAAATGTCTGTAAGAATATAGTTTCTGCCAGGCGTGGTGGTGCATGCCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGGGGCCAGCCTAGTCTACAAAGTGAGTTCTAGGACAGCCAGGACTATACAGAGAAACCTTGTCTTGAACATCCCCTCCCCCAAAAGAATATATCATCTAACCTGGGCATGGTGGCACATGCCTACAGTCTCAGAAGGTTTGTTCTAAGTTCCAGAAGGAAAGGAACTTCGCCTGGACTATAGGGTAAGACCTCAAAAGAACAAGCCTCAAAAAAACAAGCAACACAAAGGTAACTTGCTGACAGGAAGCACCTGCCCCAGTCCCAAAGTGTAACACTTAAATAGGAAAGTAAGTGGGCAGGGAAATGGCCCAGTGACACCTGCCAGTCAAACGTGAGGACTAGAATTTGGATCCCCAACACTCATACAAATAAGTGTAGTGCCCACCTGCAGTCTCAGTGCATGGGATGTGGAAATAAAAGGTCCCCCTGGAGCAGTGTTTCTCAACCTGTGGGCCTTGACACCCCCAGACTACCAGAAAGTGCAGATACTCACAGTCTGTAGCAGTAGCAGGATTAGAGCTATGAAGTGGCAATGAAAGCAATGTTATGGTTGGGGATCACCATGGCAGGAGAAACTACGTATTAAAGAATACAGTGTTAGGAAGGTTAACAATCACTGCTCTAGAGCAGGCTAACTAGCTAGACTGGTGAACTCGGGAGCTCTGGGTTTAATTATATATGGGTTCAATGTATAAAGAAGAGAACCTCTATCTCCTTATCTATAAAATGGGTATAAGACAACAAGGCAGTGGAAGCTCATATGGTTGATGCTGAGAAAAATCACAGCTGGCGCTGAGCAGTTGTGTACCCAGGCAGGGCCGTGCGTCTCTGCTTAACACCATCCCACAAGAAAGGCACACACGGGGAACTGGGGAAATCACCCCAGGAAGAAGAGGCAGCAGGATGACAGTCCTGACCTTTGACACCTCTTATGGCAGACTGCCTCCTCTCCACACAAAGGCACCCATACCCTGAAACACCTTGTACGCACTACTCATTCAAAAGGTTTATCAAGAAATCCTTACAAATAAAGCAATTCTCCAAATGCTTCAGTAATCTTGTTTGAAACCAGTAAATAAGGCCCTCTTAAAATTTACAAACGATGCCTGGAGAAATGGCTCAGCAGTTAAGAGCACTGACTGCTCTTCTAGAGGTCCTTTTTTTTGTTGTTTTTTTGTTTGTTTGTTTTGTTTTTCGAGAAGGAGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTGGACCAGGCTGGCCTCGAACTCAGAGATCTGCCTACCTCTGCTTCCTGATTGCTGGGATCAAAGGCGTGTACCACCACGCCCAGCTTCTTCTAGAGGCCCTGAGTTCATGGTGGCTCACGACCATCTGTAATGGAATCCAGTGCCCTCTTCTGGTGTGTCTGCAGACAGCTACAGTGTGCTCACATACTCAGGTGTCCTTCACCCTGACCTTGATGGGGGTGGGGCTCTCTGCCGCTCACCAGCTACCCAGCCTAGCCAAACTGTTACACCTTAGATTTACTTACACACACACCTTTAAAACAGAAAGACAGTCTGAATGCTGAGCACAGGCCTCCAGGCGTGAAGCACAATGGGGGGTGCAGACTATGGGAAACTTCAGGTGGCCCCTTATGGAAGAAGGGTCTGGGAGAGCAGGCCCTGGCTTGACCCTGCGTCTCTGCCCTGACCCACCCCAG
Seq C2 exon
GTATCAGCGGAAATGGGATGAACTGGCTGTGCGGGAGAAGCTGTTCCATCAGGAGTTCGAGCAGCTGGCCAACAACAAGAAGGAGATTGTGGCCTTCCTCAAGCGCACGCTGAACCAGAAGGTGGATGAGATCACAGACCTTAATGACCAGCTGCAGAGCCTGGAGGTGGCCAAGGATATGGAGAAGGACGCGTTCGAGGCCCAACTGGCCCAGGTGCGCCATGAATTCCAGGAAATCAAGGACCAGCTCACCACAGAGAACATCGCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038987-1700019L03Rik:NM_025619:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
Other AS DBs: