RnoINT0100564 @ rn6
Intron Retention
Gene
ENSRNOG00000012512 | Nexn
Description
nexilin (F actin binding protein) [Source:RGD Symbol;Acc:708354]
Coordinates
chr2:257473211-257474733:-
Coord C1 exon
chr2:257474707-257474733
Coord A exon
chr2:257473403-257474706
Coord C2 exon
chr2:257473211-257473402
Length
1304 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TTTATTTTCTTCTAACAAAGATT
3' ss Score
3.92
Exon sequences
Seq C1 exon
ATGAATGACGTGTCACAGAAGGCAGAG
Seq A exon
GTAAGTAAATCTCAACATGTGTGTGTGTGTGTGTGTGTGTGCATGTGTGTGTGTGCGTGTGTGTTCGCGCGCGCATGTGTGTAGGTGGGGTTGGGAGAGGCAGGGAAGACTTGGAAAGGAGGGAGAAAGAAAGGGAGGAGGAGCTGAACAATAATACATGGTTGACTGAAGGATTGTGGGGAAGGTCACAGTTTGTAATTGCTAATCTCAGGATGTACAAAGAGAGAAGGTTCCGTTGTGCACTGTTTTGGGTCACTACTTTATCTGGGTTCTGGGAAACAAGCATACTGAGTTAAGTAGAGTGGTCTTAGAAACGACCCTCAGTGTTGTCTTGATGAGGCTTGGACCTTTGGCAGTGACAGTTCAGTCTTAGGAGGAGGACTCTCAGCATCTTTAGAGGACTGCAGTAAACATCCTTTAAATTTTTTCCCTTTCAGTTTCTTGGCTGTAGTTGCTGAGAATTGAGAGCTCCCAGATGCTGACACTCAAAAGTGACAAAACAGCCATGAGGGGCCAGGTCTGCCACATGATCTGTGGCAGATTATGAGGAGAGAGTTTGGCATTCTGACACTCGATTTTATTTATAAAAGCTTCTTTCGGAAACAAACTTCTGAAAACGATGAGAAGAATCTACATCCTTAGTTTTAGAATAGGAAAACTGTTTCTCTAGTCTCCTATCAGATTTCCTTCCTTCAGGGTTTTCCTTTTAGAGCCGAGTCCACGCAGATGTTGTAGCTTCCCTGCACATTTTCATGGGGTTTGTGGAGTTACACATGGGCAATGTGCTAGGAGGCACGAATCACGTCTTGTGGGGTTAAACTGGCCATCAGCTTTGCCTGTACTGTATAGCATAACGGCAACAGTGCCATCTGTACACACTTTACCTCAAAAGCCCAATCTTTGCTTTGTTTCCAAATTCATATACTGTACTAAGATTGACCTTTTTAATTAGTAAGGGAGTGATGTTAATTTGAATCCTTAATAATAGGATGGAGAAATAAAAATTCTTTAATTAAATTAGAGTTCAATATTTTTATATTTTACTGGCCTTCACCCTCAGTAAAAGGCTACCAACTGGTTGGGGTTTCACTTCTGAAAATCTTTGACTTAATAAAATTTCTGCTCTCATATTTTCTGTAAGTTCAACTTAACAAGTTTTAGAGAACATCTAATCAGGCTGCGATGATCCAAATAAAGGTTTGAAATTCATTTCTATCTGTTTTGATATTATAATGTATCTTGTTGTTATCTTTGTCTAATTTCTTCTTTTTAAACTTTCTTCTCTTTATTTTCTTCTAACAAAG
Seq C2 exon
ATTCTGCTTTCTTCATCTAAACCTGTCCCCAAATCCTATGTGCCAAAACTCGGCAAGGGAGATGTAAAGGATAAATTTGAAGCCATGCAGAGGGCCAGGGAAGAAAGAAATCAAAGGCGATCTAGAGACGAAAAGCAAAGAAGAAAAGAACAATATATTAGAGAAAGAGAATGGAACAGGAGAAAGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012512:ENSRNOT00000016967:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.922 A=NA C2=0.938
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACGTGTCACAGAAGGCAG
R:
CTCCTGCTTTCTCCTGTTCCA
Band lengths:
215-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]