RnoINT0012598 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103375873-103378166:-
Coord C1 exon
chr6:103378008-103378166
Coord A exon
chr6:103376784-103378007
Coord C2 exon
chr6:103375873-103376783
Length
1224 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TGACCATGCTTTCTCCGCAGAAT
3' ss Score
12.12
Exon sequences
Seq C1 exon
GGAGAGGCAGAATTTGCCCGGATCATGAGCATTGTAGACCCAAACCGCTTGGGGGTAGTGACGTTCCAGGCCTTCATCGACTTCATGTCCCGAGAGACGGCTGACACAGATACAGCGGATCAGGTCATGGCTTCCTTCAAGATCCTGGCTGGAGATAAG
Seq A exon
GTGGGTCTCCTGTGGTTCAGGCACCATTTGGACTCCAATCTGTTGGTCACGGGGCTAGGATATGAGCATCTCAGTCATTCCTCTCAGGGTCCCATTGGCCTTGCTGTGCATCTCTGCCCATTAGGACATGGTATAGGTTTTGCAAGGAACCCAGCAGCAAGTCAGCAAAAGCACGTGTGTTGAAGGGGAGGCGAATGTAGAGTCGCTGGAGTATGTAGGATCCTAAGAAGCCATCTAGTTGAGATGAATAAATTTGTAAAAAGCTCAGAAAGAAGAAGTGGTCACCCTGACTTTTGCAGTGAACAGAGGGCAGCCCCATTTCTTCCTCACACTGGGTCCCCAGGTCTCCTGGTTGAAGAGTTTGGAGGTATAAAGTCTTTGGTGAGTCCTAGAGCAGTAACCTAATGTTGTGACCCTTCAATATAGTTCCTCACATTGTGGTGACACTCCAACCATAAAATTATTTCGTTGCTACTTCATAACTGCAATTTTGCCTCTGTTATGAATTGTAATGTAAATATCTGATATGCAACCACTGTGAAAAGGCCATTTGACCCTCAGGTTAGAACCACTGCCCTAGACTTTTCAGCTCCTAAAAACAGCCACTTCGATGACTTACCCAGTGGGGGAAGGAAAGGAAACCCAGAGGCCCAGACTGGCTGAGATGTGTGGCGTGGCCCGTAGATGTGACGCCTAAAATAGACATTCAATTTACTCTCACAATTAGACACGGTGGGAGGTCTCTAGAGAAGCCAGTTGTGTGAATGTGTAAAGCTCCTGGGAATAATACTTGTCCCACCAACTGACCTGTTGACACTGAGCCAGCACGTAGTTACAATATACCAGTAGGATGAATGAAAAGAGTCTGAGTAAAATAGGATTAGAAGGAAGTTGAAGTAGATACTAAAATGAAAAACATGACGTGTTTATAACAAATACATCTGACATATAATTTGTAAATATATAATATGCACTTAAAATATATATGTACATACATATAGATGTCTGTGTTCTATGTATGCATGCATGTATTATGCGGATCAAGTAGAGCTAGGAGAGGAAAAACACAGGTACCTAACCTTACTGGCAAGCTTATGACCTAATCGTGCCAGTGCCGCGTTGCTGAACATGACTGGCAAGTTTACGACCTAATAGTTGCGGCAATGCCGTATTGCTTTCCGGCCACTGCCGAGCTTTGCGACCCTGACCATGCTTTCTCCGCAG
Seq C2 exon
AATTACATCACCGGGGATGAGCTGCGCCGCGAGCTGCCACCTGACCAAGCCGAGTACTGCATCGCGAGAATGGCCCCCTACGCGGGCCCTGACTCCGTGCCGGGTGCTCTAGACTACATGTCCTTCTCCACGGCGCTGTACGGCGAGAGTGACCTCTAACCCACCCCTGCCTCCCCCCACCCTGGCCTTCTGCGCGTGCGCCCCACCCTGCTCCTGCTCCGCCCAGTATGGCTGTCTGCGTTTGGTTTCAGCTCAGCCACCAAGGGGACAGAGCTCCGACCCAGGCGGCACCGAGCCTCCCTACCCGCAAAGTGACAGTTTACAAAATTATTTTCTGCAAAAAAGGAAAAAAAAAGTTACATTTAAAAAAAAGTTTAAAAAGAAAAAAAAAACAAAAAACTACATATTTTATTATAGAAAAAAAGTATTTTTTTCTCCACCAGTCTTAAATGGAAAAGAGGAAAAATTAACTATTTGCACCGAAATGTTTTTGTTGTGACATAGGAAAATAACCAAGCACAAAGTTATATTCCATTCTTTTTACTGAATTTTTTTCCTTCTACCTGTTCCATCTGCTGTGTTCATTTCTCTAATTTCATGTCCACTTGGGGGTGGGGTAGGTGGGTACTCTTGTCAGAGGCACACTGGTGCATGTGTGTTTGCTCGCTCACTTGTCCATGAGAATATTTTATGATATTAAAGAAAACCTTTTGAAATGGCTGCTTTTCAAAGAAGATAATTCATGGCTTCTCATTTTTAAGTCTCCTCAAAAGTGTCGCTGGCCTGTTTTATGACTGCAGTGTTGTTATTGTTTTTTTTTAAATTCTGAATATTGCCTATTAAAGATAGGAGAAACTTGGAGATTATGATGTTGCTTGGCACAGACTGTATTAAAACAACACTCCCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PD(58.5=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(70.1=88.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGTGACGTTCCAGGCCTTCA
R:
AGCTGAAACCAAACGCAGACA
Band lengths:
357-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]