RnoINT0131093 @ rn6
Intron Retention
Gene
ENSRNOG00000016919 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:RGD Symbol;Acc:708362]
Coordinates
chr1:44067233-44069073:+
Coord C1 exon
chr1:44067233-44067314
Coord A exon
chr1:44067315-44068955
Coord C2 exon
chr1:44068956-44069073
Length
1641 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
ACCCTTTGTTTCTCATTTAGCTC
3' ss Score
9.21
Exon sequences
Seq C1 exon
AGAAGTTGATGGATAGATTTGATTTTGGGGAAGATTCTGAGCATAGTGAAGAATCCAAAAAGGAAATTCCTACTCCTCAACT
Seq A exon
GTAAGAATTACAATTTTCTTTGTACCTATGTTTTCTTTGTCTCTTGTTCTAAATACTGGGTGGAATGTTAGCAGCCTTAACAATTGGAGCAAACTTTTTTATCAGTTAGGGTATTGTTTCAGACTAAGCACCAGGATTCTGGAGGGTGGTAGACTTGCTGTCTTAATAGCTCCCTAGATTATTTGGACTCTTTTTCAGATCTTTGCTAATAGTTGGGGTATATCCAAAGTCTATAGGAAATTGATAAGCATTGGTAAGTCCAGTTGTGTGATATTTTTTTCATATCTTTGTTGGCTTAAACTATTTGTAATAGGTGGGACAGATGCTCCTGTCAAAAGTCCAACTTCTAGAGTAGTATGCCAATTTTCTGAGAAAAGTACATCTGAACTAGTTAGAATGAATGATTAGAATTATATGGGTTTCATTTATTTAAATGAATGGGCTTAGTATTTTTATTTAATTCAGTTACCTTTGTCCCTTAAATGGCTGTACAGAACCTATGTTTTCTGAGTGGGTTTGTAAGGACCAATAGGATGAGTGTGAGGTAGAAGTTGGGAGGGAGGGGAGGGAGGGAGGGAGGGAGGAGGGAGCGAGAGAGAGCGAGAGAGATATCTCACCCAAGCAGAGGTAGTAGATCTTATATACCAGGATAATATGTAAGAATACATAAAATAAAATCCATTCTTTTGACAAAGTCCTGACAGAATTTTAAAAATAGTATTTTAGATTCTAAGTAGTGAAGGTGGAAGAGCGGTCTGAGGTGATGTGGATGAGGGTACTAAGCAGCGTAAGAAGGGAGTTGTGAGTAGTCCTGAGGGTAGTCAGCGCCTGCCCATCTTCTGAGAAAGAGTGTGCGCACTGTTGAGTGTCACATATTCTGCTGAACTGTGTTCCTTCATCTTCTACACAGTAATGCAAATGCTGTGTAGTGAGAGGAAATAAATGGACTCCAGTTTCTTTCGTGACAGTGTGTCAGATTTGAAGATAGATATCATTCTTCCTGTAGGTTTGTCTGCTCCAGGTGACAACACTCAAGGACTCACACCACCCTACTTGCTCATTTTAGGGTACCCTCTTTTTCCTCATGTGTTACCTTCTAGCACCCAGATTCCAGGTATATTCAGCTCTGACTTTCCCAGAGTGTAGTTAAATTATTATTTTCTCTTTCATCTACAACTGTTTTCTGTTTACATCCCTCAATAACATGATGCTTTTTTAAAGGGCACAACTCTATAAAGTGTATGGGCACTGAGGACATTTCCACTATCTCATGGTTGAACATGCGTCATTAAATTGATAATGTTTACATACTTTTACCTCTTTTTAAATATTTTTTTGCAGTTTTACATTACCCTAATAGAAGTTACTAATGTCTGTGTATAGCATATTCATGTGTACAGCATGAGGCAATGATGTCAGTTCTGTAACAGCATCTATAATGCCTTTTTGTTGTAACATTATTGAGTGTATTTCTCTTCTAACATGTTGATTCTTCAAAGTATTCCATTTTGGGTATTAATATTTTAAGAAGAGAACAACACTGCAGTAGAGTACCTTGGGTGTATGATGTTCTCTAACTGCTTGCTCTCTGTTACCTTTTGTCATCTTAACATGCAGTGTCACCCTTTGTTTCTCATTTAG
Seq C2 exon
CTCTCACGTTTCTGAGTCTGTGAACAACTCCATCTTCCATCAGATAGCAGAACAGCTGCAGCAGCAGAACCTGGAGCAGTTGCGGCAGCAGCTCCTGGAGCAGCAGCAGCCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016919:ENSRNOT00000065733:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.933 A=NA C2=0.625
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGGATAGATTTGATTTTGGGGA
R:
CTTCTGAGGCTGCTGCTGC
Band lengths:
194-1835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]