DreINT0131084 @ danRer10
Intron Retention
Gene
ENSDARG00000100056 | scaf8
Description
SR-related CTD-associated factor 8 [Source:ZFIN;Acc:ZDB-GENE-030131-3703]
Coordinates
chr17:48844292-48846726:+
Coord C1 exon
chr17:48844292-48844624
Coord A exon
chr17:48844625-48846564
Coord C2 exon
chr17:48846565-48846726
Length
1940 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
ACTTGCTTTTTTGTGTGTAGTGC
3' ss Score
7.67
Exon sequences
Seq C1 exon
AGAACAGGGTGCCATTGGGCAGTCAGCACCATGCTCAAGAGCACCACAATTTTACAAAAGGTAAAAGAGAGCACTGTTTAATCACACCCCACCCACTACTATTGCCAGTACTCAAGATTAAACCTTTTTAGCCTCTGTGTTTCTGTTTCTGAATTCATGGTCTGTCACACCACGACTGGCTCTTGAACTATTCTTATGATATCAATATCCAAAAAACAGGGAGTATTAGTTAATGCCTTGGTATTAAAGATGAATTTATCTCTGTTTGTTTTGTTTGATCTCTTTCAGTTCTACAAACATGTTGTCCAAAGTGTGGAGAAATTCATTCAAAAG
Seq A exon
GTCAGTGTCCACTTCATAAGGTTACATTATAATAATGTTTATTTCTTGTTTTTAAATGACGTCTTTTAAAAACCCAAGTACACCTTACATAGATCTTCTAAATATTTGGGATGCCTTGATCAAGGTTGCTGTGCACCCAATGCTGTGATCAGTCAATAACATTAATAAAATATTTAGTTCTAACATCTCATGCGCATTTCAGCTTTTTAATTTTCAATTGTGGATATTTGACAACAAAAGACCATTAAAGATTTTAAACATTAAATGAGATTCTAATAAATTTGTTCTAATGTCAGCTAGGGCTGTGCAATTAATCGAAAATCCGATTTCGATTTCGATTACGGCTTCTAACGATTATGAAAAAACATTAATCGAGATAAACGATTATTCCATTATTTACCGCCCCCTTTCCAGTTATTCTCACTTGTTGCTCTTAAAGGCGTGAAAGACCGAATGCTTATGTGCGTGTGTGTGCGGCGCACAGACAGTCAGAAACATGCGGTCAGCACTTGGTCTCATTCGCACATTGCGACGAGCAGAGAGCACACACATTTAAATTCATTAACTTTAGTGCTTAAATGTTCAAATAGGTGTCAAAACGCAGCGTTTAAGAATTATTCATATTAACCCTCATTTGTGTAATAAACAAACGAGTTGAGAATCAAAAGACGCGTAAAAGCGAAACCATTAAAGAGACAGAGCACAATAGCTGCAGCCTGTTTTATCATGATTAATACAACCCCTCTCCCTCTTGACTGAAGGACTTTTGTAGCTTAAGTGTTTTTCTTACAGTGAAGATGCTTAAAGCACAGTTTGTTTCATATTTTTATTTTATTGTATTTATTTCTCTTTCCTTTGCAGGGTGGAAAATAACTGTATATATGCAGTTAAAGTCAGAATTAATAGCCCTCCTGAATATTAGCAACCCGTTTCCTCCCCAATTTCTGTTTAATGGAAAGAAGTTTTTTTTTTTCAACACATTTCTAAATATAATAGTTTTAATAACTCATTTCCAAGGTCACACTTTACAATAAGGTTCATTAGTTAATTTTAATTAATGCATTTACTAACATGAACAAACAATGATCAATACATTTACTACTGTATTTGTTCATGTTAGTTAACGTTAGTTAATGAAAATACAGTTGTTCATTGTTAGTTCATGTTAACTCATGGTGCATTAACTAATGTTAACAAGCATGGACTTGGTTGTTAATAATGCATTAGTAAATGGTCAATTATGATAAATAAATGCTGTACATGTGTTGTTCATGATTAGTTCATGTTAGTAAATGCATTAACTAATGAACCTTATGGTAAAGTGTTACCATTTCTAATAAACGATTAATTTTATCTTCGCTGTGATGACAGTACATTATATTTTAGTAGAAATTTTTTTAAATACAAACATTCAAATTCAAAGTGTGATTCAAAGGCTTAATTAGGATAATTAGGCAAGTCATTGTATAACAGTAGTTTCTTCTGCAGACAATCAAAAATATATATTGCCTAAAGGGGCTAATAATATTGGCCTTAAAAGAGGTTTCAAAATATTTAAATCTGCTTTTACTCTAGCCAAAACAAAACAAATAACCCTTTCAATAGAGCAAATACTGTTAAAATTCGTTACTCTGTTAAACATCATTTGGGAAAAATTTATTTTTAAAAAATTCTCAAGAGCGCTAATAATTTTGACTTCAACTAATAATCATTTGGAATAATCGTGATTACAATTATGACCAAAATAATCGTGATTATGATTTATACCAAAATCGAGCAGCCGTAATGTCAGCCTTGCGTGAAACACAGAGCTCAGTGTGGTTTATCTTTCTTTTTTTAATGCTGCATGGAAAATCACTCAATTTCCATGATATAATTGGCTTATCCTGGACCCTTCTTGATTGTTCATCACTCTCTCTTACTTGCTTTTTTGTGTGTAG
Seq C2 exon
TGCAAACCCGAGTACAAAGTTCCTGGTCTGTATGTCATCGACTCCATTGTACGGCAGTCCCGTCACCAGTTTGGTCAAGAGAAAGATGTTTTCGCTCCACGCTTCAGTAAGAACATCATTGGCACGTTCCAAAATCTCTACCGCTGCCCGACAGACGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100056:ENSDART00000161898:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF048188=CTD_bind=PU(72.7=88.9)
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:
AATCACACCCCACCCACTACT
R:
GCGTGGAGCGAAAACATCTTT
Band lengths:
356-2296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]