MmuINT0022846 @ mm9
Intron Retention
Gene
ENSMUSG00000027580 | BC006779
Description
cDNA sequence BC006779 [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:180966392-180970296:-
Coord C1 exon
chr2:180970221-180970296
Coord A exon
chr2:180970077-180970220
Coord C2 exon
chr2:180966392-180970076
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTGACCCATCTCTCCTATAGGGC
3' ss Score
10.36
Exon sequences
Seq C1 exon
GTTAGTGCGCTGAGACAGGAGCTAAGAAGGAGGAACCTTGGTGAGGTGTCTGTGGGCAGCTTTGAGATCCTGCCAG
Seq A exon
GTAGGTGACAGAAATGTGGGCCAGAGGCTGGCCTAACAGGGAGGCAGCTTCCAGCCCATTTCTTTGATGTACATATATGTAGGGTGGGACTGAGGTGGCGGGGCTGCTGGTTCTACCTGGCCATCTGACCCATCTCTCCTATAG
Seq C2 exon
GGCGTGAGTTCCGGGTGGTGGTACTGAGCTCTGTCCACAACCGCAATAGTCTGCTTAGCCCAGGGGCACCAACCTCAGAGTTCTTCACTGAGCCTCGAGTACTGAACACGGTCATGACTCGTGCCCAGTCTCAGCTGGTGGCTGTGGGAGATGCTGTGGCCCTCTGCTCCTCTGGAGCCTGCAGAAATCTCTGGAGAAGCTTCATCCGCGAGTGCATAGAACACCACAGCGCCTTCCCTGAGGAGCTGTCACTGGAACAGATTGAGCAGGGTGTGGCCCAGAGACAGAACTGGGCCTCATTGACACTCAAAGCTAGGGGCCCAGAGACAGAGCAAAAATCTATGGCCCAGGGCCCACAAAGGCTCATAGCTGAAGGGACCATGGTCACGGTGAAGGCAGAGACCAGAGCCGAGGCAGCAGCCAAGGCACAGACTGCGGCAGTCGCAGCAGAAGACACAGCAAGCGGGAACTCAGCCTCTAGAGATGCAGCAGCAGAAGTGTCCACCCTGGAAGGGGGGATGTCTGAGGAAGATTCTGAGTCTGACTTCTGGCCCTCTGACTGGGAGCTCAATGCTGATGACGCCATCCTGAAGGAACTTCTCGACGAGAGCCAGCAAGTGACTGTGACTGTTAGGGAGGACGGACTTCTGGACACCGTGGTTTGCTCTGCACCACAGAAGGCCCGAGAGTACACAAACCTACCCTCATCTGTGCTGTGGAAGTTCCTGCGCTCAAACTCCAAGCAATTCCGCCGCTGCAGCTTCCTACAGGAGACCTTTGAGAGAGCATTGGCCACTCCGCTGGACGACATGGCCTCTAGCCCTATCCAGGTCAGGGGCCGTCTGAACTGTGGGATGGCATTCACGGGGGATGAGGTGCTAGTACAGATCCTGGGTCCGGCAGGAGATGACAGGTGCGTCCCTGGGAGCCTGCAGGGTCGTGTGATGGGTGTGTTGAAGAGGAGGAGGCACGAATTGGCCTTTGTGTGTCGGATGGATGAGTGGGACCCCCGCATCATGATCCCTATCAACGGTTCTGTGACTAAGATTTTTGTGGCAGAGATGAAGGACCCACAGCAAGTTCCCATCCACCGCCTCATTCAAGGCCAGGTGCAGCGTGTGAGGCATGAGACCCTCAAGCCTGAGGATCGGAGCACCCGGCTTTTCTGGGTCCGTATTGTCCTTTGGCGGGAACGTTTCTACTATCCACTAGGCATTGTCCTGGAGGTGCTGCCCAAGGCCATCACCTGGGAGCAGGGCCTTTATATCCTTGACCTAGAGCATGGCCTGAAGGCCCACACACCAGACCCAGCCTCAGTTTCCAAGGCTCTGCAGAGATACCGCTCAGAGCTAAACACGGCCGCTGGTCACCGAGAGGACTACCGCCACTTCCTGACCTTCACTGTGGACCCCCAGGGTGCCTGCAACCTTGACGACGCTCTTAGTGTCCGAGACCTAGGCCCAGTGTACGAGGTGGCAGTGCATATTGCTGATGTGGCCAGCTTGGTGCCCAAGGATGGGGCCCTGGACGTGGAAGCCCGCCAGCAGGGAACTGTGTTCTATGCCCCCAATAGGGAGCCAGTACTCATGCTGCCCGCCAGCTTGTGCCAGGATGCACTCAGCCTTCTCCCTGGTCAGGATCGCCTCGCCATCTCTCTCTTCCTCACCATGGAGAAAGGTGGTGGCCAGATCAAGAGCCTGCGATTTGCACCCTCCATAATCCGCTCTGACCGCCAGCTGTCGTATGAGGAAGCCGAAGAACTGATCAAGAGACACCCTGGGGCTGGCCTGGAGCTTCCAGCCCACCTGGACTCTGTGGAGGCCTGTGTTGTAGCTGCCTGCTACTTCTCTTGGATGTTACGTCGCCAGCGCCTCTCAGCTGCCTGTTACTATGAGCCGCCAGACGAGGACAGTGTGCTGGGCTTCCGCACAGCTCACATCATGGTCCAAGAGTACATGATCCAGTTTAACAGCCATGTGGCTGAATTCCTTGTGAGCAACAAGCACACACAGACACTCACACCACTCAGGTGGCAGCCCACACCCAGTAGGCAGCAGCTTGACAGTGTTTTCAAGAAGTACAGAGGCCTGGTGCCTCTGTCCCTGCACCTGTGCCACCACTCGAACACTGACTATACCCCCAACAAGCAGCTGCATCTCCTGACTTCCCTCTGGAAACAAGTGCAGCTTGCAGCTGGTACTCAGGATTACAGCCAGATGGTGGACCTTATTGCTGCAGATGACATGCACCCTTCACTGGCTCCTGCTTGCCTGGACTTGCGAAGGGCTCTAGGCCGCTCTGTTTTTGGTCGCTCCAGCCAGGGTAAGCAGCAACCTGCTGTTCACCACTCGCTACAGGTGGATTGGTACACATGGGCAACCTCACCCATCCGTAGGTATCTAGATGTGGTGCTGCAGCGGCTGATCCTGCTGGCATTGGGCCACAGGGGCTCTACATATTCTAACAGGGACATTGATGGGCTCTGCCTGGACTTCAGTCGCCAGTATGCAAGTGCCCAGAGCTACCAACGGAGGGCCTACAGCCTGCACCTGGCCATCCAGCTCAAGAGCCAGCCTCAAAACAAGCTGGGCTTCGTAGTGGATGTCGAGATGGGTGCCCGCTGCTTCAAAGTGCTTTTCCCTATAAACCGGGAAACGCTGCCCGATCCCTGCCCAATTCACTACCATTCCCTGCAGTTGGCTGAGCACCCCCAGGAGCTAGTGAGCCAGACAGGCGTGCGGCTTGTATGGCGGCGCCGCATGTACTCGGTGCAGGCGTCCAAGCTGCCTTTACCACTTCTGGGCACGAGTCTTGATCCACACACCCAGACTGTAGATGCAGCCCTGTGGATGAAGCTACTGATGCTGCTGAAGGAGCAGCGCTGGCCTGAGATAGCTGCCCTCATCCAGGAGCAAGATAAGCGTTTTCATCCAAGGGAGAAAGTAAAGATCCACCAGAGCCGCTGTGGACACTTTGTAGAGGTGGTCTACGAGCTGGGCAGTGGAGATACCCTGCAGGTTCAGCTTGGTTCCAGCCTGCAGCGGGGTTTCCTGGCACCAACCCTGAAGCTGTGGACTGTGGTCCCTGGCTTCAGCCTCTGTCTGGAGCACATGGAACGGCCAGGTGACTGCTTTTCAAGCCATGTGCACCAGGCTCTGCAAGACCAGTACCTTCAAGTCGGCGAGTACTCAGGTGCCTGGGGGCCACGCTGCGCCCTGGAGTCGCTCACCAATGCTGTTACAGAAAACGACTCCATTGTGCTGCACGATGTGCATATCTCTTGGGACACATCCCAGGGGCAGTTGCAGGGCACCTTCCAGCTGGAAGCTGCTTTTCTCCAGGAGAAATGCATCAACATCCACTTTGGCTGTTGCTACCTCTGCATTCGGCTGGAGGGGCTCCCTCTCCCCCTAGATAGCTCACTCCCTGGGCCTAGTGGCCTTGGCCCCTTCCTGAACATTGACCCCAATACATATACCTGGGTGGCCCATGGGCTGTCTGGTGACTGGGACCATGAACTGGCTGGTGGTGACTGGGACCAGGAGAATGTGGATGATCGGCAGGAGGCGCCCAAGCAGGTATATTTTCTCATCCATCACATGACCATGGAGAAGGTTCCAGAAGAGGTGCTGAGACCTAGCGCTCGGTTCACTGTGGAAGTGCTGTCTAAGCAGCTTCCTGACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580-BC006779:NM_183162:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(20.5=100)
A:
NA
C2:
PF130871=AAA_12=PD(42.6=4.2),PF0077314=RNB=WD(100=29.1),PF130861=AAA_11=PU(6.2=0.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGCAGCTTTGAGATCCTG
R:
CGCTGTGGTGTTCTATGCACT
Band lengths:
256-400
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: