RnoINT0131064 @ rn6
Intron Retention
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30385972-30387257:-
Coord C1 exon
chr11:30387100-30387257
Coord A exon
chr11:30386141-30387099
Coord C2 exon
chr11:30385972-30386140
Length
959 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TATGTTTTTCATTTTTCTAGGTC
3' ss Score
11.78
Exon sequences
Seq C1 exon
ATTGGAAAGGCATCCCCAAAAAGCCTGAAAATGAAGTTGCCCAAAATGGAGGTGCAGAAGCCTCCCACACAGAGCCAGTGTCCCCCATCCCTAAGCCTGTGCCCGTGCCTGTGCCTGCCCTTCCTGTTCCTGCGCCTATAACAGTACCACCTCCACAG
Seq A exon
GTGAGAGGCTGAGAACATGGACTAACCTTCAAAGGTCTGAAAGGTTGCTTTTGAAATCTCACTGTTCTGTCTAAATAAAAAGTGAGTAGACACACATAGTAGTGTCCTCTGTTTTTGGTATTAAATCTATTTGTAAACTCCAGCTTTTTTCATAAATATTAATAAAACCAGATTAAATTTAGATTGTTTCACAAGTGTGTAGACTATTCAGTGCCCTGATTTATAATGTCCTAGAGATGAAATCCAGAACTACTGTGGATGTTATTTTGCTTCTTACTAGGCCTTCATTTGTCAGGGAGTTACACTGTGCTGAACTCAGATACACATTTCCCAAGCCCCAGCTGCTTTGTGGAAGATGGAATTCCATGTTTGTTGGCTGTTTTTGTTGTTGTTTGTTGTCATGTAGCTCAGGCTACCCTCAAATTTGCCTTTTTCTATCTGTTTCCCAAGTGCTAGGACTACATGAGCTGATACACCTCCCTGGCTTATTGGTGGTTTTAAACGCTGAGTTGCATTTGTTGGTGTTCAGTGTCAAGACACCATCACTGAGTGTGTATCAGCTCACTTAGTCTCAAACTTTCTTCAAGTTGGCATGTTTCCAGTTTAGAACGCTTAGATAGCCAGAAAGGCAGTACAGTTTGACTCTGGGATAATTCATCTTATTAATTTACCAAGTATATTGCCAGCTATCCTTTCTGCATTTCCAGTTTTTTAAAATTTCAGTCCTGGAGTATCTTCAGACATGCTGTACTGTCAGAAGACTAATTGATGCCAGTCAGAATGGCCATCTTACAGGAGAGAGCAGAGCTTAGCGTTACAGCATTTAGGTAGGCACAGGTTGCCTACTGTCTCATTATTCTAATAAATATAGTGGTATAATGACAATTTAAAAGCTCCTGCTTTTATTTTCTTGGCACACATAGACTGAAAGCAGCTAAGTATGTTTTTCATTTTTCTAG
Seq C2 exon
GTCCCACCGCATCAGCCGGGCCCTCCTGTCGTTGGTGCTCTCCAGCCGCCTGCTTTCACTCCTCCCTTAGGGATCCCCCCTCCAGGCTTTGGCCCTGGTGTTCCTCCTCCTCCTCCTCCTCCACCACCATTTTTGCGTCCAGGATTCAACCCAATGCATTTACCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104:ENSRNOT00000002881:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.906 A=NA C2=1.000
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:
TTGGAAAGGCATCCCCAAAAAG
R:
CTGGTGGTAAATGCATTGGGT
Band lengths:
326-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]