RnoINT0131092 @ rn6
Intron Retention
Gene
ENSRNOG00000016919 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:RGD Symbol;Acc:708362]
Coordinates
chr1:44065708-44067314:+
Coord C1 exon
chr1:44065708-44065882
Coord A exon
chr1:44065883-44067232
Coord C2 exon
chr1:44067233-44067314
Length
1350 bp
Sequences
Splice sites
5' ss Seq
CCAGGGTAG
5' ss Score
-18.22
3' ss Seq
TTTGTCTTTCTCCCCTTCTTAGA
3' ss Score
-5.46
Exon sequences
Seq C1 exon
CTTCAGCAACTAATACAGACCTTACAGATACAACAGCAGAAGCCCCAGCCCTCTATCCTTCAGGCTTTGGATGCTGGCCTTGTGGTTCAGTTGCAGGCACTCACTGCACAGCTTACAGCTGCAGCTGCTGCAGCCAACACACTTACTCCCTTGGACCAGGGAGTCTCTTTCACCA
Seq A exon
GGGTAGTGGTGGAAGCTACTGACGTGTTGTTATATGTGAACTGAAGAATATGTAATATCTCATAGATTCTACTGTGTAGATTGTTTTATCACAGATTTGTGTGTTTGATAGGACCTTTTTATATGTAGTCCATGCGTGCTACTAATACCTAATCTGTCTGCCTCAGCCTCCCAAGTGCTGATTGTGCTAATCTGTATTCTGTAATACATGTTACCATCATTGTACATTTTATGTGTAGGCTTAACTATGGAAAAAGTGATTTTAAAATTGAAGCTGTTTAATGAATGATTGTGTGTGTGTGTGTCTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGACAGAGAAAGACAGAGAAAGACAGAGAGAGAGACAGAGAGAGACAGAGAGAGACAGAGACAGAGACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCAAGCGCAAGCGCACCTGTCTGGAGTGTATCTTGGAGGTGCTATGTGTGTGTATAAATATGCATATATAAGCATGTGTATGTTTTCTGTTATAATTATTTTCATAGAAAAATCAGTCCTAGTTTCTTGGATAATGACTTGGCCATTTAACCAGTTGTTCTTAATTTATTCCTAATAGCTAGACCACATTTTATTATGAAGTTCTTACTAGTTAACAATTTGTTATGGTCCTAGAATGGTTTTTTAAGTTACAGTTCCATAATCCATCATTTTCTGTTTATTTTAGTTTTCTGAGCTAGGCATGATGGTGCATGCTTTTAATCCCAGCACTTGGTAGGTAATGACAGGTGGAAATCTCTGAGTCTGAGGCCAGCCTAGTCTACAGAGCAAGTTTCACGATAGCCACTACACAGAAAACAAAACTGTGGTTTAGTAGTCTTACTGCCTTGTCCAAATCGGCTCTGCTCTGTGATGATGCTGTGGTGTCTCTAGTCCTCAGGTGATTCCTGCACCTCCAGAGGAGCCTTGAAACCAGAGATAGAGCTAAACCATCTAAAAATGTTTACACATACTTGTGATAATGCTTAATAAAGTTAGCACAATGAAAATAGAAAAAATAATAAATGAAACTACATGATTTAGATATCTCTTGAAATCACTGCAGCAGTATTTTCAGACTGTGCAAGTGAACAGAGTTGCATTGGTGAATGTGTAAGGGCACTGCTGTATGTTACAGTGCTCTAAACACGCGCTCAGAACGTCTACTCTAGTACAGAGTGTTGTAAAACAGCACAGAACATTTACTTCGCATTGCAGATAGCATTTGTAATATGCACATTGGAGGCACTTTTTAATTTGTCTTTCTCCCCTTCTT
Seq C2 exon
AGAAGTTGATGGATAGATTTGATTTTGGGGAAGATTCTGAGCATAGTGAAGAATCCAAAAAGGAAATTCCTACTCCTCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016919:ENSRNOT00000065733:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.933
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCAGCAACTAATACAGACCTTACAGA
R:
TTCCTTTTTGGATTCTTCACTATGCT
Band lengths:
238-1588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]