RnoINT0012596 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103378008-103379379:-
Coord C1 exon
chr6:103379314-103379379
Coord A exon
chr6:103378167-103379313
Coord C2 exon
chr6:103378008-103378166
Length
1147 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
GTGTTGGCTGTTTCCTCTAGGGA
3' ss Score
9.55
Exon sequences
Seq C1 exon
AAGAAGACGGGCATGATGGACACGGATGATTTCCGCGCCTGCCTTATCTCCATGGGTTACAACATG
Seq A exon
GTAATGTAAACCCCATCCTCCACCTGCCAGGCTTTCTCTTGCCCTGGCCTGGAGGCAGCCACCTGACTGGAGAAGCTAAGTCTTAGAAATGGTGGACGAAGGCTCTTAGGTTAGAACTGCCCTCCTCAGGGGGAGTCTCATCGCCATCCTTGGGGAAAGTGGCACCTGAAAAATAGCCCACCCGTGGCATCAGGGTGTGGCTGGGAAGCTTGGCCTCCTCCTCATGGTCTCTGACCAGTTTATCTTATGGTACATACTGTGGAAAAAGGGCTTTTTCACCCCCACAGTGGACACCAGCTATGGACAGCCAACCCCAAGGCTTATGGAGTGATAATTCTGCTTTGTCCCATATGAGAATGGAAGTTTATACTTCTGCCCAGATAACAGCTCCATCCAGACCACTCTTGGCCCAGGCCTCTCTCTAGTCTTGTTCTGTCCCCTCTGTATCCGGCTTTCTGAGCAGGATAGGACCTTAGCTGGACAGAAGGGTGTCCATTGAACCGAGTACAGAGCCCATGGGATGCCCAGCAGGGTTAAAGGCTAGACCAGAAGTATACTCAGTAAATCACATTGCCATCCAGGTCTTGTGGTCTCAGATGAAGTGAGGAAGCCTCATGAAGTGGTTGTAAGAGTTAAATAAAGTGATTTCGAGTACTGTGCACACGTCTGGCACAGTGTTAGGGAAACAGCAAATGTTGGAGCCAAACTGCCTGAGCCTTAATCCCAGCTCCCTACCTACTGGCTGTGTGACCTTGGGCAAGTCACTTAGCCTGTGTGGGCCTCAGATTTCCCATGCAATGGAACACTATGATTGTATTCAGTTGCGATGACAAGATGAATTTAGAATAGTAGATGGCATATAATACATGTTGTGTGGGTGTTAGCCATTGTTCATTTTATTGTCATTATAATTAATACTGCCATCATTTCCTATAAAGGAAACCAAGGGCACTGCAGGGGGTTGGGGGGTTGGAAATCCTGAAAATCCCAACTATTGAGTCACGTTCATACCCTGGGGCAACCCAAGCCAGATCAGAGGTCTGTTGTGCCCTCCTGTTCCAACCATAGGCTACTTAGGGCTGGACGTACACCTGAGACACCCAGTAGGCCACTAGGGTGACAGGTGTGTGTTGGCTGTTTCCTCTAG
Seq C2 exon
GGAGAGGCAGAATTTGCCCGGATCATGAGCATTGTAGACCCAAACCGCTTGGGGGTAGTGACGTTCCAGGCCTTCATCGACTTCATGTCCCGAGAGACGGCTGACACAGATACAGCGGATCAGGTCATGGCTTCCTTCAAGATCCTGGCTGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(37.7=90.9)
A:
NA
C2:
PF138331=EF-hand_8=PD(58.5=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGACGGGCATGATGGACA
R:
GCCAGGATCTTGAAGGAAGCC
Band lengths:
214-1361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]