MmuINT0010606 @ mm9
Intron Retention
Gene
ENSMUSG00000026834 | Acvr1c
Description
activin A receptor, type IC [Source:MGI Symbol;Acc:MGI:2661081]
Coordinates
chr2:58135800-58137410:-
Coord C1 exon
chr2:58137243-58137410
Coord A exon
chr2:58135957-58137242
Coord C2 exon
chr2:58135800-58135956
Length
1286 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
ACTTTTCTTATGCTTTATAGGTA
3' ss Score
9.33
Exon sequences
Seq C1 exon
ATAATGGAACTTGGACACAACTCTGGCTTGTGTCAGAGTATCACGAGCAGGGCTCCTTGTATGACTATTTGAACAGAAACATAGTGACTGTGGCTGGAATGGTCAAGCTGGCGCTTTCCATAGCGAGTGGTCTGGCTCACCTGCACATGGAGATCGTGGGTACTCAAG
Seq A exon
GTCTGTATCGCCTTCCAGAAAGCTGGCCTTTGTATTGACTTTATTTTAATTAGTACCATCACCAAATACAGAGGAACAGTGGAAGTCCTTCACAAAAGTGAGGTTCTGGTCACGATGAAAGCATCTTTCTCGTAGTCTCAGCACCACACATGATATTCCTGATGTATTTTCATCTCAGTAGCTCCATCCTTGCCAATAGACTGCATACCTGGAGTTCTTGTCTTGGTGGTCAAGGCAAATACAGTCATCTATTGCAGATGATATAAATGCTTGCTTTTGATAATTAAAATGTAATTTGGTAAAGATAATGTGACCGTGAGTAGAAACCGGGTGGGGGGAAGCTGGGACAGAAGGATTGCCGGTGAGTTTGAGGTCATCCAGGGCTCCATGTGAGTTCCATGCTAGGCTGGAACTGTCTCAAAAAAGATAGAAAAGAATATATGAATATCATACGTGAAGGCCAAAAGATATGCCCTGTCTTGTTGATTTGCTGAGCCTACTGGAAAGTGACTCTCATGTCATTAGTTTAAACAGGCCACTAGGTTCATGACCCCTTTATACTCTTAAAAATTATTGAAAGCCACAAGGTTTTGGTAAATGTAGGTTATATTTATTAATAATTTCCACATTAAAGATTTTCATTGAGAAATTGAAAAAAATGTTTACTTCAAGGGACTGTAATTAGCCAATTAAATATTAATGTGAGTAACAGCTTCCAAATGTTTTATAGCTTTCTAATGCAATGTAGTAAAAAGAGTGGTGTTTGTTTTACATTTTTGAAAATATATTAAATATCTAGCCCATTGTCTGAAATTTCACACATGCTCCTCTTTATACTATTTGTCTCCCTATATGGTTTTGTTTGAAGTAAGTGAAGAAATGGTGGTGTATATGTACAGTGGTTTTAAGGACCCCCTTGGTCCTTCTGTTCTCATTTGGGAATTACTATTCTAGGGCAGTAAAAGTTTGAGTAAATGTTTTGTTAGAAAACACTTGCTCTATTGTAATCACTCAAAATAGTAGCTGTAAGTCATTTACTGAACAGTCTGGTTATTAATGTTCACAATGGTCACCTGGTGCTCCTCATATTGGAACTGCTTGAGCACAAAGCAAGAGTCTGCCCTCACTTGGCTTGGAGTTTGAAGAGGAGACTACTTAGAAAGATCAGCTGGACTTGGGTGCAGTCAGAGACAATGTGTCTGAGGAGGTGACTTTTGAGCTAAGTCTTCTAAATGGTTTGCTTCACTGAGAAAAAAAATTTAACATACTTTTCTTATGCTTTATAG
Seq C2 exon
GTAAGCCTGCTATTGCTCACCGAGATATAAAGTCAAAGAATATCCTAGTCAAAAAATGTGACACTTGTGCCATAGCTGACTTAGGGCTGGCTGTGAAGCACGATTCTATCATGAACACTATAGACATACCCCAGAATCCTAAAGTGGGAACCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026834-Acvr1c:NM_001111030:5
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(19.4=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAACTTGGACACAACTCTGG
R:
TTGGTTCCCACTTTAGGATTCTGG
Band lengths:
318-1604
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: