MmuINT0087317 @ mm9
Intron Retention
Gene
ENSMUSG00000006740 | Kif5b
Description
kinesin family member 5B [Source:MGI Symbol;Acc:MGI:1098268]
Coordinates
chr18:6212515-6213294:-
Coord C1 exon
chr18:6213185-6213294
Coord A exon
chr18:6212617-6213184
Coord C2 exon
chr18:6212515-6212616
Length
568 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
GTATTCTGTTCTTTTGTCAGCCA
3' ss Score
5.91
Exon sequences
Seq C1 exon
CAAGCTGTTGAGCAGCAGATCCAGAGTCACAGAGAAACCCACCAAAAACAAATCAGTAGTTTGCGAGATGAAGTGGAGGCAAAGGAAAAGCTAATCACTGACCTCCAAGA
Seq A exon
GTAAGTGCTGTGCTTTCTCTGCGTTGGTAGAGACTAATTCAGAGAGGTTGGCTCTTCAGACAAGAGATCCTGATGGACAGGCATCCTCATAGAAACCTGTGTTCAGTGAAAGGAGATTTTTTTTTTCTTCTTTCCCATGTTTTCTGGCTTCATATATAGAGTATAAAGTGGAGAAATCTGTGATAATTTGAGGTTTAAAAAAAATAAAGAATGTAAGTGATAGCAAATTTTGGGAGATGGAGATAAAGGTTGGGAGAATGAAATGATCAGTGACTTCAGTGACCATGTGAGAAATCCTGAATGACTGAGTCTGCCCTTCCTTTTTCTACCCTTATGAGATCAGAGTAATGAGATCCTGACCAGTTGACAGAAGAGGTTGAGCTTATGAAAGCTCAAGCCCAATATAGCACACACACTTGGAATTCTAGGCTGAGGCAGGAAGAGGTCAGGTTCCTAGTCAGGAATGTGTAGTAACATCCTATTCTAAAAGGCAGGACGCCTTAAAACGTAAACTTGATGACATTCAGACAACTTTTGAGGCTAAGCTTGTATTCTGTTCTTTTGTCAG
Seq C2 exon
CCAAAACCAGAAGATGGTGTTGGAGCAGGAACGGCTAAGGGTGGAGCATGAGAGGCTGAAGGCTACAGACCAAGAGAAGAGCAGGAAGCTGCACGAGCTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006740-Kif5b:NM_008448:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.838 A=NA C2=0.886
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=FE(23.8=100)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(8.6=37.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCAGCAGATCCAGAGTCA
R:
GCTTCCTGCTCTTCTCTTGGT
Band lengths:
191-759
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: