RnoINT0012788 @ rn6
Intron Retention
Gene
ENSRNOG00000005334 | Acvr2a
Description
activin A receptor type 2A [Source:RGD Symbol;Acc:70911]
Coordinates
chr3:33024646-33026356:+
Coord C1 exon
chr3:33024646-33024791
Coord A exon
chr3:33024792-33026241
Coord C2 exon
chr3:33026242-33026356
Length
1450 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
CTTTATTTTTCTGTTTAAAGGGA
3' ss Score
7.77
Exon sequences
Seq C1 exon
GGCTCACTGTCAGACTTTCTTAAGGCTAATGTGGTCTCTTGGAATGAACTTTGTCATATTGCAGAAACCATGGCTAGAGGATTGGCATATTTACATGAGGATATACCTGGCTTAAAAGATGGCCACAAGCCTGCAATATCTCACAG
Seq A exon
GTAGAACAAGATTTGTATTGTCTTTCCATCAAACTCAAATGTTTACTATTTAAATTTTTTATTCTTGGAGTAAAATTTTTTTTGCCGTGGTTATCCAATCATCTTTGAAGAGGCAAAGATTTTTATGTTTTTAAAACTAGGTTTGGGATTGGGTAGGATGTATTTTGTTCTGTACATGTTAATGTACATGTTAATTTCATTAATAAAGTCTAATGATCCCATGCTTTAATTTGTCTAATTTCTGAAACTATGTTTGAGAATAAAAGTATATTTTCTCTATTTCAAATGAGAAACAATTTAAACTCAAAACTTTGATTTACTTTAAAGACAATTTTTAGTAGCTACACAGTGATAGAATTAAGGACAGATTAAGTATTTTGTCTTTTGGATGAATATACATTCATTCCTTGGGCTAAAGTAGAAGGGATCAATCAAGAGGAAACAGCGGGTCAGTAAAGAAATAGTACACACCCAGTGAAGAAACTGTTACAGTCTTAAAAAGGAAACATGTTTGTTTCTGGAAAATAAATTGAGTTTGCTATTCTTTAACTTCCTTGGAAGAATATGGGATTGCATTGTCTTCTTGTATTCAGTTTTAAAATAGCTGTTTTAAAAGTCTGTGTTAACATAGTGATTTAGGTGTATTGTCACCACATTCTAATTTTGCAAATCGTGACTTCTTTAGAAAGTCCTCTCCTTTCTTTATGAGTCCCCCAAATTTTTAGTTCTAGGGCCGTGAACAATGTTTGATACTGAAAGCAGTTGGTTTCTGGAGCACTTGACTCTCCTTCATGCTTTTGTAGGACTGAATGTGCCCTTCTAAGTGTTCTATTGATGGAGCATAGATGTCTGCTCCAGTTGTCTTTAAGTTGACCAGACAAGGCAGATGTGCAGAAAGAATAAATGTATTTCTGACTTACAGCTGATAAGACTTTTCAAAGTACCAGTTCTGCTTTATGGTAAAAGGCTTCTGTCTGTTCTGTATTTGCAAAAGTGCTTTCCTTGAAAATTGGCCGTGTGCAGTTCAAGGACCATTGGAGTGAGGGGCCATTCTAAAATGGAAGTCTTTTATCAAAGACTGTCAAATGTTAAAAATTTTCTTATTTTTCTGAAGCTTAGTTTCTATGGGAGTTTATAGGTCTGAAGTGTTCCCATTGCCTTAAAGACAGAGTAAATGTTATCACTATGTGAGAATAACATAGATGAAAATGTATTTCTGGAATGAGTGTAAGAGTGCGTTATGGAGAGGATTCCCTCTTGCTCCTTTTAGGACAGGGTTGTTCCTGCTTTCTTGTGCTTTAGGCCAAGACTTAGACTCTGTCTAAGCATCTTAACTTTTTGTTTGCTCTTCTTAGTTTTAAGTAACTTTATTTTTATAACATTTTACTTGCATTCAGTGGAAAAATTTAAAAGATAACTTGCTTAAGATACTTTATTTTTCTGTTTAAAG
Seq C2 exon
GGACATAAAAAGTAAAAATGTGCTGTTGAAAAACAATCTGACAGCTTGCATTGCTGACTTTGGGTTGGCCTTAAAGTTTGAGGCTGGCAAGTCTGCAGGTGACACCCATGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005334:ENSRNOT00000007404:7
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=0.051
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(16.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.2=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:
GGCTCACTGTCAGACTTTCTT
R:
ATGGGTGTCACCTGCAGACTT
Band lengths:
255-1705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]