RnoINT0012777 @ rn6
Intron Retention
Gene
ENSRNOG00000004828 | Acvr1c
Description
activin A receptor type 1C [Source:RGD Symbol;Acc:621789]
Coordinates
chr3:44280664-44282295:-
Coord C1 exon
chr3:44282128-44282295
Coord A exon
chr3:44280821-44282127
Coord C2 exon
chr3:44280664-44280820
Length
1307 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
ACTTTTCTTATGCCTTATAGGTA
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATAATGGAACCTGGACTCAGCTTTGGCTTGTGTCAGAGTATCACGAGCAGGGCTCCTTATATGACTATTTGAATAGAAACATAGTGACCGTGGCTGGAATGGTCAAGTTGGCGCTTTCAATAGCGAGTGGTCTGGCTCACCTACACATGGAGATCGTGGGCACTCAAG
Seq A exon
GTACGTATCGCCTTTCAGAAGGCCGGTCTCTTTGTATTGACTTTGTTTTAGTTCGTTACTCTCATCAGGTACAGAAGAACAATGGAAGTCCTTCGTAAAAGCGAGGTGCTTGTCATGATGCAAACAACTTTGTCGTAGTCTCGGCACTGCACATGATATTCCTGATGTGTTTTCATCCTGAGTGACTCCATCCTCGCCCTTCGATTGCACACCCGGAGGTCTTGTTTTGGTGGCCAAGGCCATAATGTAGTCATATATCGCAGGCGATATAAATGCTCGCTTTTGCTGATTAAATTGCAACTGGTAATGGTAATGTGAGCAGGAGAGGAAGCTGAGGGCGGGAAGATGGGGCAGGAAGATGGCCCGTGACTTTGAGGTCATCCAGGGCTACATGGTGAGTTCCATACTAGGCTGGAACTGTATGAAAAAGATAAAAAGTATGAAAACCATACGTAAAGGGCAAATGATGTCCCCTGCTTTCTCATTCTCTGAGTCTTCAGGGAATTGACTCTCAAGTCATTAGTTTAAACAGGCCCCTAGGTTCATGACCTCTTTGTACTCTTAAAGATTATTGAAATCCCCAAAGTTTTAAGGTAAATGAAGGCTATATTTATTAATAACTTCCATATAAAAAACTTCTCATTGAGAAATTAAAAAATTGTTTACTTCAAGGCACTGTAATTAACCAATTAAATATTAACACGAATAGCAGCTTCCGAATGTTTTATAACAGTTTTTTAATGCAGTGTAATAAAAATAGTTTTGTTTTACATATTTAAAAATACTTTAAATATCTAGCTTATCGTCTGAAATTTCACACATTCTCTTTATCCTATTTGTCTTTTGTCTCCATATATGGTTTTGGTTGAAGTAAGTGAAGAAATGGTGGCGTGACCCTGATAGGCAGATGTACAGTGGTTTCAAGGACCCCCATGGGCCTTCTGTTCTCATTTGGGAATTGCTATTCCAGTGCAGTGAAAGTTTGAATAAATGTTTTGTTAGCAAACATTTGCCCTATTGTAATCACACAAAGTAACTGTAAGCCATTTATTGAATGATCTGGTTATTAGTGTTCACAACCCAACTATCACCTTACGCTTCTCATGTCGGAACTACTTGAGTATGAAGCAAGAGTTTGCCCTCACTTAGCTTGGAGTTTGAAGAGGAGACTGCTGTCTCTTCGGAGATCTGCTGGACTTGGGTGTACAGTCAGAGATGATGTGTCTGAAGAGGTGACATTCGAGCTAAGTCTTCTAAATAATTTTCTCCAGTGGGAAAAATTAATACACTTTTCTTATGCCTTATAG
Seq C2 exon
GTAAGCCTGCTATTGCTCACCGAGATATAAAGTCAAAGAATATCTTAGTCAAAAAGTGTGACACTTGTGCCATAGCTGACTTAGGGCTGGCTGTGAAACATGATTCTATCATGAACACTATAGATATACCCCAGAATCCTAAAGTGGGAACCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004828:ENSRNOT00000059280:5
Average complexity
IR
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGAACCTGGACTCAGCTT
R:
GGTTCCCACTTTAGGATTCTGGG
Band lengths:
318-1625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]