MmuINT0045611 @ mm9
Intron Retention
Gene
ENSMUSG00000078700 | D030028A08Rik
Description
RIKEN cDNA D030028A08 gene [Source:MGI Symbol;Acc:MGI:2441931]
Coordinates
chr11:96820868-96822310:+
Coord C1 exon
chr11:96820868-96821595
Coord A exon
chr11:96821596-96822174
Coord C2 exon
chr11:96822175-96822310
Length
579 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GTTCCATCTGATTTCTACAGGTC
3' ss Score
9.34
Exon sequences
Seq C1 exon
ATGGAGACTACAGGAGGACTCGGAATCCTCTGGGAGTGGAGTTACAGCTGGTTGAGAGCCACGTGAGTGCTGGGAATCAACCTTGGAACCTCTGGAAAAAGCGGCGAGTCAACCACAACCCATCGCTCAAGCCCCATTGCTGGGCCTGGTGACAACGCATGTCAGTCCTGCCTCAGCCCCCTGAATGCATGTTTACAGATGTGCACCAGAGCACCTGACTCAAGTTTTAAACGATCATTTTGAGCACTCCTTCTCATGGCCATTTCCCTGTAAATCAGCAGAGACACTGGGGAATGGAGCAGTTTGACTCCCATGGCTGCTGGAGTCTCCTTTACTGCCCCGTCTGTCTTGAGCAACACTGGGCTCTGTCTGTTCTTGTCTGCTTTTAGAGTGGGCTGAGCTGGTAACATAAAGGAGCAACAGCTGAGTGGCGGTGATGACGCCTTTAATCCCAGCCCTCAGGAGGCAGAGGTAGGCAGATTTCTGAGTCTCAGGCCAGCCTGGGCTACAGAAAAAAAAAAAGGGAAGGAAGAAAAAAGCAGCAGCAGAGACTGCAAAGTGACCAGAGAGCTAAGCAGCCGGCAGGGCAGGCTACCAAAGCAGCAAGATGGCGGCCACAGGGCAGCTAAAAAGACAAGAGTTGACAGCTGGCAGAATGGCCAGCTGCCCTGACAGCAGCAGAAGCAAAAGCAGCCGTGAGCACACTCCAGAACCCAGAGGTCATCATG
Seq A exon
GTGAGTGGAACATGGCAGGCTCAGGAAGACGAATGTCTTCTCCCTTAGGAGGGATCTAGACTAGAGGGGAAAACACACGCTCAGTGGCCACATGCACACACAGTGAAGGAAGCAGAAGGACAACCCCCTCTCGGGGAGGATAAACAGGGGTGCAAAGAAGCAAGGCTACAGCTCACACATGCGACCCCAGCACTGCACTGAGGCTGGAGCAGGAGGGTCCCATGTCTGAAGCCAGCTTGGGCTGTGCAGCGAGTGAAGCCAGCTTGGGCTGTGCAGCGAGGTAAAGGCCCACCTGGGACCCACAGGGAGACCTGTCTCAGAAAGGAAAAGGCCTGGCTGCCCCACTGCTATTGCTCTTGTCTTTAGCAGAGGCCAGCATTTTTTTCTCTTGAACTTTCCTACTTTACAGCAGATTCTATGGTTCTAGTTCGAATTCTCATTCTTGCTGTTATATATACTCTTACATTAAAAATACTTTATTATGACAGTATACAGATCTACCCCATTATGCCCCCAGAGCTACCCCATAAGGAAAGAATAAAACAGACCAGATATCCCTGTTCCATCTGATTTCTACAG
Seq C2 exon
GTCAGGACTACTTGGCCTAAGACCTGAAGAGACTCCAGGGGAGAAGCCATTTCCTGCCCACCCCAAATGATGGTGACTCCAGCTTCCCGTAAGATCTGACGATGATCTGCCTCAGTTTCAAAAGCAAGCCAAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078700-D030028A08Rik:NR_003293:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTAATCCCAGCCCTCAG
R:
ATTTGGGGTGGGCAGGAAATG
Band lengths:
355-934
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: