MmuINT0000852 @ mm9
Intron Retention
Gene
ENSMUSG00000030858 | 1700007K09Rik
Description
RIKEN cDNA 1700007K09 gene [Source:MGI Symbol;Acc:MGI:1916568]
Coordinates
chr7:138469445-138470841:-
Coord C1 exon
chr7:138470706-138470841
Coord A exon
chr7:138469839-138470705
Coord C2 exon
chr7:138469445-138469838
Length
867 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
GTTTTGTGTCTTTTCTTAAGAAT
3' ss Score
6.63
Exon sequences
Seq C1 exon
GGATGTATAAGCCTTTTGACCTCCGGACAATAATCACGATCATCATTGGTTGCGGGATCCTGACAGCCATGTTTCTACTGATAGGACTTGTGCTTTGTCTTTACTCCAAAATATCCAAGGCTCTGAAGTCCCCTGG
Seq A exon
GTAAGAATGAACAATACCTTCCTCTAATGGGGCACTGGGGCCCTCTGCTGGAGCTGGGTCACCTCTTACTGAAGTAGCCACTTGTAGGGGGAAGTCAAGAGCCACTGTCAGGTTTGAGAGAGAAGGCAGGTGGGCACACAAGTTTGAGGGTTCTCCTTCCAGCTTGGGGCTGTGAGCTCCTAAGTTGACTGCTCTCAACCTGGACAGCATGGGCGCCAGCATCACTTTGCTGTCATTTAGACACGGAGTGAACCTTCAGCTACTTCTCAGGGCCCTGGCTGGGCATCCTTTCTACCTCAGCACTGTGGACTGGAGAAGCCAGAGGATGCCCTGGGGATGAGCTGTCTCCTATTCACACAGAGCTTGGCCATAGTGAGCTCTTCTCCACTCACTGGGGAGCTCTCATGTTCCCACAGTGCCAGTGACTTTGGGGAAAGTGACATGGGGCAAGAGAATAAAGTGGAGGACAGCTGACAGGGATGTAGGTCAGACAAGCGATGGTTTGAAGTTTGGGAGAGAAGCTTTAAGTATGAGAAAAACTGGCTGTCATGATGTCCCTTAAGAGGGACTTAGATTGTAGGGGCCAGAGCTGAGCCCAGCCAACTGCTGTGCCTTCTCTATTATCCTCCTGGGCCTGCAGGAGCCCCTGGGGCACAGTCACTCTCTTTACTTGTGATGGAATCTGGGTTTCACATGCATAGCAATTGTAGGAGAGGAAAAGATGGGAAAGGAGCAGAGAGCTTTAACCCAGGGCTGGTGTCACATGTATGATGGGTTCCAACCCTGGCCTTTCTCACAAAGCCCTCATAATTGTAAGAAGCTCACTGAGAAGGGAAATTCTAAGCTTGTTTTGTGTCTTTTCTTAAG
Seq C2 exon
AATCGCAAAGGAGGCAGATGATGAATGCTATATTGATCCATGCAAGGACCCCCATGAGAGCATCATCCTGGCCAACAGCATCCCTGCTGAGGCTTGTCATTCCTACCAGGCCAACACCATTGCTGTTGCGAGTTGCGGTCCCCTCCAGTGTTGTAATGTATGTGGTGTCTATGCAGATGTTAACTCCCTGCCACCCTGCCTTTGTAGCATAAGGGAAGGACTCTGACATGGCACCTATGGATAAAAGGAAATCTTCATGATCAGTATTTCAATTTCTTACTAGAATATTTTCTTACTCAAGCCAATTTCTATAGTGTTTATGTTGTATACTATCTAACATTGTGTTTATGTACTTTTGTATAAATGTACAATAGTGAAAACAATCTCTGCCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030858-1700007K09Rik:NM_027037:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151931=FAM24=PU(24.0=26.7)
A:
NA
C2:
PF151931=FAM24=PD(74.0=48.7),PF151931=FAM24=WD(100=55.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
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:
GCCTTTTGACCTCCGGACAAT
R:
GCCATGTCAGAGTCCTTCCCT
Band lengths:
358-1225
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: