MmuINT0051015 @ mm9
Intron Retention
Gene
ENSMUSG00000052861 | Dnahc6
Description
dynein, axonemal, heavy chain 6 [Source:MGI Symbol;Acc:MGI:107744]
Coordinates
chr6:73032882-73034880:-
Coord C1 exon
chr6:73034645-73034880
Coord A exon
chr6:73033144-73034644
Coord C2 exon
chr6:73032882-73033143
Length
1501 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CACCATGGTCTGTCTTGCAGGCC
3' ss Score
9.81
Exon sequences
Seq C1 exon
GTCCGTAATGTTGTGCAAGAAGATGAAGCAATAGCAAAGGTGAAAGCTGAAGAGACTCAAGCGATCGCTGATGATGCCCAGAGAGACCTGGAGGAGGCACTCCCCGCCCTCGAAGCTGCCAATAAAGCACTGGATTCCTTAGACAAAGCAGATATCTCTGAAATCAGAGTCTTCACAAAGCCCCCCGACTTGGTCATGACTGTGATGGAAGCCATCTCCATCCTCTTAAATGCCAA
Seq A exon
GTGAGTCACTGGATGCCTGGTGAGATTTCCCTTTCACCAGTTTTCTCCTTTCTCATATTTCCCTAATATGTATATTCATTCTGTTCTCCGACCACCTCTCTTTGGTTTGATTGGTCCATTCAACAAACGTATCCAACAAGTGTTTTATTCAGTGAATATTTTATGACAGATAGTGGAAGATATAAAACTATTGGCTATAGAATACAGGCAATTTGAGGGACAAAGAAATGTGAACCTTGGAAAAGCTTGGAGAACTACTATTTTCATGGAGAGGGAACTGGGCAGACAGGCAGTAATTTCATCATGAAGGATCATTGTGTGTATGCCAAGCACATTTCTTCTGAAATCTAGTTTTCAGATTTTCAACAATACAATCTTTTTTAATTTTTTCATGTACATCTATATTTCATATAGATATATATTCATGTATCTATTATATATACATAATATTAATTAAATAGCATATATGTGTCATATTGTTTGATCAACAGTTCCCTCTCCCTCTTTTCCTCCAAGTCCTTCCTCCCTCATCCACATTTCCTCCCTTTCTCTTCAGAAAAGCAGAGGCCTCCCATGGGTAGCAACCAGCCTTGGCATATCAAGTTGCAGAGAGACTAGGCACATCTAGAAGGCATTTTTTAAGACATCCTAGCAAGAGAATTAAAAGGTCAAAGTTAAGGCAAAGGATAAAATACAAGAATTAACAGTGTTTTTTAAATTAAAACTCTAGTTTTCATGCTGGAGAGATGACTCAAAAGTTAAGAGCACCTGCTGCTCTTCCAGGGGACTCCAGATCGGTTCCCAGCACACACACCAGCTGGGTCACACACTTCTGTAGTCCGGGTTCCAGGGGATCCCGTATATCTTTTGGCCTTCACAGCCAACTCTCTCTCTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACACACACACACACACACACACACACACAATCCCACAAACAGACACAAACACATCATTAAAAATAAAAATAAAATAACTCTTCTTAGAAACTACTTTCCTAGCCAGGCAGTTGTAGTGCTTGAGGCAGAGGCAGGTGGATCTCTGCGAGTATGAGGCCAGCCTGGTCTACAGAGCAAATTCCAGGACAGTCAGTCCTACACAGAGAAACCCTGTCTTAGAAAGATGGATGGATAGATAGATAGATAGATAGACAGATACATACATACATACATACATACATACATACATACATACATACATACTAAAATTAAAACTACTGTTTCTATAACATCTTACATTTCTAAAACTCTCATATTTTATTCTCTAGCAAATCTAGGATGTAGATAATAATCATCCACTTTCCTCTCTCCTCATGAATTAGTTGGGCCATTACCAGAATTACAGTGCCAAGGTTAAAACTCCCCAACTACTGGGTAATACTATAACGTTCTCACCGCCACTTACCTTGGTGTTATCCCGCTCTGGGTGGCAGTGCTGTTAGCTCACCATGGTCTGTCTTGCAG
Seq C2 exon
GCCCGACTGGCCAACAGCAAAGCAACTTCTTGGTGACTCTAACTTCCTAAGAAGGCTTTTAGAATACGATAAGGAGAACATAAAGCCGCAGATCCTGTTGAAGCTTCAGAAGTACATCAACAATCCTGACTTCGTGCCTGAGAAGGTGGAGAAGGTGTCCAAGGCCTGCAAATCCATGTGCATGTGGGTGAGAGCCATGGATCTGTACTCTCGGGTGGTCAAGGAAGTTGAACCAAAGAGACAGAAGCTCCGTGCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052861-Dnahc6:NM_001164669:51
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127772=MT=FE(23.3=100)
A:
NA
C2:
PF127772=MT=FE(26.0=100),PF0241312=Caudo_TAP=PU(56.4=75.0)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCGCTGATGATGCCCAGAG
R:
CATGCACATGGATTTGCAGGC
Band lengths:
358-1859
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: