RnoINT0131090 @ rn6
Intron Retention
Gene
ENSRNOG00000016919 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:RGD Symbol;Acc:708362]
Coordinates
chr1:44060430-44061740:+
Coord C1 exon
chr1:44060430-44060583
Coord A exon
chr1:44060584-44061609
Coord C2 exon
chr1:44061610-44061740
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TGTGATGTCTTTTCTAAAAGGAA
3' ss Score
7.48
Exon sequences
Seq C1 exon
AGTAAAATAGTGAGAGTATTAAACTTATGGCAGAAGAATAATGTTTTTAAGAGCGAGATTATCCAGCCTCTCCTGGATATGGCGGCAGGGATTCCTCCCCCAGTTGTCACCCCGGTTTTGGCCAGCACCACTGCAGCCATGAGCAACACTCCAG
Seq A exon
GTACGTGTTTGTTGTACAGACTGTTGGAGACCCAGTCCCTCTGCTCACCCACTGTTCACATGCGCAGTGCTACAGGGTGACAGCAGAGGGGTTTGTCCAGCGTGAGACTTGATGGCTGAGTGTGGTGGCAAGTGCCCTTAGTCCTTACACTGGGTGGGCAGGCAGTCAGGCAGGTGTGTCTCCTTATGTTTATCAAATAAAATACTGTGCTTTTGCTGTTAATCTAAAATTTAGAAAACATTTTTAAAAAATTGATTTTCTTTTTTTTAATCATCAGAAACGTTTTGGAAAATGTATATATATAACCATCCATTTTGTTTTGTTTAGCACTATCAGGAATTGAACTCGGGGCTTTGCCTGTGCTGGGTAAGCCCTCTTCCACTGAGCCACAGCCCCAGCTCTCAGTGAAAGGTTTCCTGATTTAGGTTGTCTGTAACTCCTTAAACCTATATATGTAACTTAATTTGTTTACAGGAAATTTGGGGAATGTAATTTTTAAGAACCCAAAAATGGCTTAATAAAGCCAAGGTTGCTTTAATGTAATTATCTAAAAATTTTATCATTTGGAACATTTTATATATTTTCAGTTTTTACTGACCGAACCCAGCATTCACTAACTTTTTGCATGTAGTTCTTGCTCACCTGTCTACAAATTTACATAATGTATAAACAAGAGTTTTGAACAAAAATGGTTTTATCTTATAGAATCTCACAGATTTTACCAGGAAAGATTGTATTTTTGTTATTTCTCCCTGTTAAAGACTTTTCTATAGTAAACCTTTGCTGACAGGTTTCATCGAAGTGGTAGCTTAGTTTAAGACAAGTGTGGACAAATCCCATGGGGCTTGGAGTGGAGAGTTTCCTTTCTGTCTGTAGAAGGCTGTAAGTGGTTTTCAAGATGGAGTCAATAAAGTGAAAGTGTACTATCTGCTCATGTTTTATATATTAACTGAATAAATCTTGGAACCTTTTTAAGTATCGTTTACTTGCTTCCTTCTTTGGTACATGTGATGTCTTTTCTAAAAG
Seq C2 exon
GAACACCTGTGACACCTGTTACTCCAGCCAATGTGGTTCAAGGCCTACCTGATCCATGGGTATCGCAGATAACAAACACAGACACACTGGCAGCTGTTGCCCAGATCCTACAAAGTCCTCAAGGTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016919:ENSRNOT00000065733:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PD(24.2=30.8)
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:
AGTGAGAGTATTAAACTTATGGCAGA
R:
CTGTTGACCTTGAGGACTTTGT
Band lengths:
277-1303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]