DreINT0085716 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54284662-54285781:-
Coord C1 exon
chr1:54285581-54285781
Coord A exon
chr1:54284847-54285580
Coord C2 exon
chr1:54284662-54284846
Length
734 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TGAACTGTGTGTATCTACAGCTG
3' ss Score
8.47
Exon sequences
Seq C1 exon
GTAAAGCAGCCACAGATCCAAACGCAGCGTGGGCGGCTTATTACGCTCAGTACTACCAGCAGCCAGGAGGGGCAGCTATGCCTGGACAGACGCCTGCAGCTCAGCCGGCTGCTCCCGGTCCTGCTGACCAGAGCCAAGCTGCTCCAGGAGCGGCCCAGCCCGACTACACCAAGGCCTGGGAGGAGTATTACAAAAAGATGG
Seq A exon
GTAAGAGGCATCACTTCCTGCATGTTAGGGATGCTTTCATTGTTCAGTATGATGAAATTGCATGTTTATCAAGATACATTTGTTTTTGTTTACTCAATTAAGACAATAAAAAAATGTTTACTAAACTAAATTGAATTAAATGAAACTATCACTGAAATAATTGCTGAAATAAAATGATTAACAAAAATAATAATTTTTAAAATTAAGCACTCTTTCTGTAGTGGAAAATCTGATCTGTGGTTTGTAGAAACGCCTGTAGATGCTTTTTTACAGCTTAACATGTCAGTCATGATTTAAGTAAGGCATGATTTAACTACAAAAACAAATTTACAGGTAAAATGTGTTTTTCATTTGCCAAAAAATGTAAATTAATGCATGTTTAAATGCGTAAACAGTTTGATCTTGCATTTAAAATGTTTGTTTGAATTCTTTTTTTTTTTTTTTTTTTTTCTGTTTGTATATGAATTTTAATTGAGAGTTTAAGACTTTTTATTACTTAGAGGTTTGCTCAAGAGGTCATGTGCTGTACAAACACTAAAATTTAGTCTGGTTGACACTGCACTTGTTTTAACCCATAAACTAGAATGACTGAAACTAAATGTGTAAACTAAATAGATGTTCACAAAAAAAACAACAAAACCAATAATGAAACGAACTAAACTGAAATGTACAGCAAATTTTAAAATGGTATTGAAATAAAAACTTATTTAAAAATGAACTGTGTGTATCTACAG
Seq C2 exon
CTGCAGCAGGTGGAGGTGCTGCACCCGCCGCTGCAGGAGGAGCTCAGCCTGCAGGAGCTGCAGCGGCAGCAGGACAGACAGACTACAGCGCCGCATGGGCCGAATACTACAGACAGCAGGCTGCTTATTACGGACAGACAGGACAGACCCCGGGTCAGCCAGGGGCAACACCGCAGGGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.574 A=NA C2=0.613
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(64.7=32.4)
A:
NA
C2:
PF090055=DUF1897=PD(32.4=17.7),PF090055=DUF1897=WD(100=53.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAGCCACAGATCCAAACG
R:
GGTCTGTCCTGTCTGTCCGTA
Band lengths:
347-1081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]