GgaINT0081291 @ galGal4
Intron Retention
Gene
ENSGALG00000013635 | SCAF8
Description
SR-related CTD-associated factor 8 [Source:HGNC Symbol;Acc:HGNC:20959]
Coordinates
chr3:49621599-49623779:+
Coord C1 exon
chr3:49621599-49621716
Coord A exon
chr3:49621717-49623647
Coord C2 exon
chr3:49623648-49623779
Length
1931 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TATAATTATCTGCTATTTAGGCA
3' ss Score
6.15
Exon sequences
Seq C1 exon
GCCTTTAGTACCAGAATCTGTGAACAACTCACTTTTTCACCAACTAGCTGAACAACTGCAGCAACAAAATTTAGAACATCTCAGACAACAACTTCTGGAGCAACAGCAGCCTCAAAAG
Seq A exon
GTAAGAACTCCATCTTGTGGTTGTCATCTAGCAGAAACTTGCAGAGTAAATGGAATGAGCAGTAGAAAATGCATCAAGCAGAAAAATAAATACAACCAAATGTGTGGGGTATATGTTTTGCTTCTCTTAGGAAAATGAGTGCCCTTCAGCTGAGTTACAGACTGACTGTGCTTTGACTGTTCGGCTTGCTTTACTGGAAAAAAAAGTTGGTTTCTTTTTTCCTGCTGTCGTGAAGGAGGAAATGAGCCCTGAAGTTGAATATGCTACTGTCTGTGCAGAGAGAGCAGTGTACAAGCTGCTGCTATGGAACTACAAAAGGATAGAATACTAGATTGCACTGTAACCTAAATTTTCCCCTTCTAGGCTTTAAATATTGACAATAAATGTATTATTCTACTAAAGAATGTAAACTAAAGAATAGTGTCAGGTGTTTCCTGTGAAGTTCTTAGTTAAGAATAGATGCTTGAGATATTGCTAGATTGCTTAACTGTGTAAACTGAGTCTTCTCTACAACAAAGTAAATTGGCTTGTTTCTTCTGAGGTTATTCTGTTGAGTTGCTCTCCTCCCATCCTGATGTTAATTTACTGATCTGATTAGAAAATAAAATGGTTATTCTGTCTCTATGCTGGCAAGATATAAAGTGGATTTGCTATAGGGTATTTGAATCAGTTTATCAGTAAAATGGAAATTTCTGTATATTGAATGAAAATCACAACAATCTGTTGGGGACTTTATTTTAACATGTGCAAAGGTGCAATCCTCAGCTTTCAATCAAAAATGTCTGTAGGAATTTTGAATTTGTGACTTGGAGTTTTCAGTTGTATAGAAAAATAAAAGTTTTTGCTAGATTTTATTTTTATTTTACTATGTATTATTGTCATATCTTATTTAACTATAGTAACAGGAAGTTTGTACAACGTAGCTACATATTAAATAGTTTTTGATGTAAATGAATGCAATTTCTGGCTTAAACTCTGTATAGATTGTTGTACAGAAATATAACTTTGAAAGGTGAATCTGTTTCAGGAGCTTTTGATCTGACTTATCTAAAAATAGCTAATAATATGTAATTTGAAATAAAAGGCTAAATGACATACCTTATTGTAAAACAAACTATCAAAAAAAAAAAGGCAGAATTAGATGTTAAATTAGATTCCATTTATGAAATTAAGTTACATTACATATATGGGTAGAGAGTTCATATGACTCATCCCCCATTATTTGATCTTCTATTCCAAATGGTTTTACAGAAATTATTTCCCTTCAGGTCCACTCGGCTTCTTGATTACTTGGTACATAGAATAAGTTTAATGTTCACCTTGATAGCAGCTAAAAGATATAAGCTTCTACTGGACCTCCTCAGGACTGACTGCAGTGTGTTACAAGGAATATTTTCCTTAATTCCATTCTTAAGCATCAATGAGAAAGATAAGGGAAAGAGGAAGAAAATAAAACGCAAACCAAAAGTATTAAACATCTAATTAGGAGCAGAGGGGGGAGGAGGAGAAGATAGAGGAGAGACAGAAGGAGCAACAAGAGATGTGGGAACTGATACCAAGAAACAGAGATTATAGAGAAATAATTAAATATATGGAAAATGAAGTAGATAATATTATTAGAAGACAAAAACATTAAATGAGTTGTAAATACTAGTTATCAAAGTTGTCGATTACTTTTTTGAATATTTTCATTTTATTTCCTGTATTCCTTGCATTTGTTTTCTGCCCAAAGGTATTTATTCTAAATCTATGCTTCAGTATTTCTCAGTAGAAAATTACCTGAAATGAATGAAAAGGAAGAAAATAAAAGAAAGTAGATTAATTGTTTTGGAGAAATATTTGAACAACTGTCTCATGTAGTCTTGATTTTTGACACAGTAAACAGTTTCAATTATGAGGCTTCTGACGATTTATAATTATCTGCTATTTAG
Seq C2 exon
GCAAGCCCTGAGGAAAATCAGGAAGGGAATTTTGGTTCAGAGCACTCTGCATCACCATCACAAGGGAGCAGTCAACAGCAGTTTTTAGAAGCAGAAACAAATGTAGATGATTCAATGGATATTCAACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013635:ENSGALT00000022182:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.812 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTAGTACCAGAATCTGTGAACA
R:
TGAATCATCTACATTTGTTTCTGCT
Band lengths:
232-2163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]