MmuINT1005684 @ mm10
Intron Retention
Gene
ENSMUSG00000079489 | C030013D06Rik
Description
RIKEN cDNA C030013D06 gene [Source:MGI Symbol;Acc:MGI:1924626]
Coordinates
chr14:56733657-56734954:-
Coord C1 exon
chr14:56734041-56734954
Coord A exon
chr14:56733965-56734040
Coord C2 exon
chr14:56733657-56733964
Length
76 bp
Sequences
Splice sites
5' ss Seq
TATATATAT
5' ss Score
-11.95
3' ss Seq
ACATATACATATATATATACATA
3' ss Score
-4.5
Exon sequences
Seq C1 exon
GTTCAATTCCCAGCCACCACATGGTGGCTCATAGCCATCTATAATGAGAACTGGAACCCTCTTCAGGCCTGCAGACATAATGCAGGCAAAACACTGTATACATAATAAATAAATCTTTAAAAAAAGAAATGTAAGGTATGGTTCATAGATTTATAAATTTAGGTTTAGAAATACTTATTGATAAGATTGAATCTATTTTTTAAAGTTTATTTTATGTATATGAGTATATTGTAACTGTCTTCAGACACACCAGAAGAGGGCATACTTGGTGTGAGGAAGAATCATTTTCTTCAAGTCCTTTGTTTTTTATATAAACACACGTTCTATACACACAAAATAATTGTAAGAAACATAATCACATTATGTGGAATCACATATTTGTTCTGAATGTTAAAGGATATATAGTATCAGATGCCAGTAGTGGCATGTTTAACGTGCTTTGGGAATAGATTCATGTAGACTGGTGTAGCCTTTTTTTTTTCTTCCTTTATAATTTTATTGAGGAGGAATGTTTAGAACTTGAAAGATTTCTCTAGGGTCTAGAGAGATGGTTCAGCATTTAAGAGTGTGAAATGCTCTTCCAGAATATCTGAGTTTGGTTCCTCGTGCCCACGTCACTGGCTCAGAACTACCTGTACCTCCAGCTCTAGGAGATCTGATGCTTCTGGCTTACTCACACACCCAGACGCTCTAGTGATGTGCACATGATAAAACAATTAAACAGGAGCTTGAAAGATGGCAGAACAATTAAGAGCATTGTCTGCTCTTGGAGGAGACCAGCACCCACATGGGGGTTCACAATGGTCTTTAACTTGAGTTTCAGGTGACCTCATGTCCTCTTCTGACCTGTGGGTACCAGGCAAGCATGTGGTGCATATATATATATATGTATATATATACATACATACATATAT
Seq A exon
ATATATATATGTATATATATATATATACACATATATATACATATATATATATATACACATATACATATATATATAC
Seq C2 exon
ATATATATACACACACATATATATATACACACACACATACATATATATATATACATATATATACAAATATATATATACACACACATACATACATACACACACACACACACAAATATACAAGAAGGCAAAATACCTATATACATAAACTGATAATAGAGAAATATTCCCAAAAGAAATGTTTTCAGTGAGATTAGCAGCATATGCCTCTATTCCATCACTTGAGAATTAAATTGGAATTCAAGGCCAGCCTCAGCTGCTTTAGTAAGATACAGTCCAACTCTTATATATGAGATCTTTCCAAAGAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079489:ENSMUST00000113723:1
Average complexity
IR
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
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
GTACCAGGCAAGCATGTGGTG
R:
TGTGTGTGTGTGTGTGTATGT
Band lengths:
173-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types