RnoINT0012616 @ rn6
Intron Retention
Gene
ENSRNOG00000017833 | Actn2
Description
actinin alpha 2 [Source:RGD Symbol;Acc:1308097]
Coordinates
chr17:66305805-66307508:-
Coord C1 exon
chr17:66307443-66307508
Coord A exon
chr17:66305964-66307442
Coord C2 exon
chr17:66305805-66305963
Length
1479 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTGTACCACCTCCCCTTAGGGT
3' ss Score
9.93
Exon sequences
Seq C1 exon
AGGAAGAATGGCCTGATGGATCATGAGGATTTCAGAGCCTGCCTCATTTCCATGGGCTATGACTTG
Seq A exon
GTAAGATGCAAGCTGAAGTTCTACAAAGGTCTGGGACCACACCAGGCCTCCATTGTGGGGAATGTAGATGTGATACTTTTCTAATGGGTTTATTTTCATATCACAGAGCAACGCTTTGTGAAAAATCTGCCTATCGTTATGTACAAATAATGCTAAAATGCTAAAAAACTTTACTCAGTACCTGGCAAGGTTTCCTTAGGGTGAAAACATTAAGGACATGGGCTTTCCTGGTAATGTTTAGAAGCCTCATTGATATAACTCACATACTTCAGTGAAACAACTTAAAATGTACACGCCAATGGCATCCAGTTTCCTGAGTTTTAAATGGTGTTTTCCTTTGGTATTTTAGAAGATAGAAGAGGAGAGATTTTAATGGCTGGGGATGATAATGCAAGATTTTAATCCCACTTCTTGGGAGGCAAAGGCAGGCAGATCTTTATGAGTTCCGGGCCAGCCAGAGCTATATAGGGGAGTCTCTGTTTCAAAAAAACATCGAGGGCTGGAGAGATGGCTCAGCGGTTAAGAACACTGACTGCTCTTTCCAGAAGTCCTGAGTTCAAATCCCAGCAACCACACGGTGGCTCATAACCATCTGTAATGGGATCTGATGTCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTGCTCATATACATAAAATAAATAATTTTTAAAAAATCAAGAGAGAGGGAGAGAGAGACAGACAGACAGGGGACAGATTATAGAAGTGCTCTGCATTACCCTTTGATGAGTTACATGTTTATCTATTTTTGAAACAGTATCTTGTTAGGTAGCCCAGGTTGGCCTTGAGCTTACTGAGATCCTCCTCCCTCTGCCTCTAACCTTGGGCTTAGAGTCCCAGTGGTGTAAGAATAAATTAAATATACAAATTCATAGAACAAGCCAGACTACCAGGTGACATATGCCCGCATTCCCAGCACCTGGGTATCTCGTGTAGCCCAGGTGAGGTTAGCTGGGAGCTAGCCTCAAACTTACTATCCTTTCTGCTCAACCTCCTGAAAACCAGAACTACAGGTATGCACCTTGATTATATATAAAACAGTGTTGCTTTTTAAGGCTTTTTTTTTTCAGTACTAGGGACATGCTAGTCAATTGCTCTAATACTGAGCTGTACTCAGTCTCTAATGAGCGTTTAAAACATGACCAGCGTTGGTTCCTCTGGTAATAAACTAAAGAATGAGCACCATCTTACATAGTAATTCCACTTCCCAACTCTGGCTGAGTTACTCTTCCTAATGATGTAATTAGGAAGGGCAACATGGGCTACAGAAAGGACACACTTCTGATAGGCTGGGGCCTCTGGCAATGATGCTACAACAACATATAAAACTGATTGGAAATGGACCTGAGTCACCCACAAGACGAACACTTTCCAGAGAGTAAAGAGAACCATGCGGAGGACCCATTTCCATTCCAAACCCTGAATCATTTACTGTCTCTGTACCACCTCCCCTTAG
Seq C2 exon
GGTGAAGCTGAGTTTGCCCGAATTATGACTCTGGTTGACCCCAACGGACAAGGCACGGTCACCTTCCAGTCCTTCATTGACTTCATGACTAGAGAGACCGCAGACACGGACACTGCAGAACAGGTCATCGCCTCCTTCCGGATTCTGGCTTCTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017833:ENSRNOT00000024098:19
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:
PF138331=EF-hand_8=FE(32.3=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(47.7=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
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:
AGGAAGAATGGCCTGATGGATC
R:
ATCAGAAGCCAGAATCCGGAA
Band lengths:
222-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]