DreINT0085711 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54287615-54288184:-
Coord C1 exon
chr1:54288082-54288184
Coord A exon
chr1:54287737-54288081
Coord C2 exon
chr1:54287615-54287736
Length
345 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
CATTTTTCTCTTCTCTGAAGATG
3' ss Score
7.91
Exon sequences
Seq C1 exon
GTTCCAGTTCCACGTCACTCTGTGGGTGTCGTGATTGGCCGAAGCGGAGAGATGATCAAGAAGATTCAGAATGACGCCGGCGTGAGGATACAGTTCAAACCAG
Seq A exon
GTCGGTTTAAATGCTTAAATTGATTTAAACTCAATGTGTTAAGTGTCACTTTGATAAGCTTAAGTAGCATGGCCAGAAATGTTGTAGAAATCTAAATTGTGTTTTTATTTATTTTATTTTTTTAATGCCAGAAACCATTAGAATACATTTAATTTCATTTTTATAGATTGTCATATAGTTGTATCTCGACCAAATATTGTTCTATCCAAACAAATCACATATTGATGATAATCTTGTTCAGCTTTCAGCTGTAGTCTAAATCTCATTTTATAAAAATTGACACTTACCACTTGTTTTGTGGTCCATATTAAAATGCATAACTCTTCATTTTTCTCTTCTCTGAAG
Seq C2 exon
ATGACGGTACTGGTCCAGATAAGATCGCTCATATAATGGGTCCTCCCGACCGCTGTGAACACGCCGCCAGTATCATCAATGAGCTTCTGCAGAGCATCAGAGTACGAGAGGAAGGAGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.829 A=NA C2=0.902
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=61.0)
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:
TCCAGTTCCACGTCACTCTGT
R:
CCCTCCTCCTTCCTCTCGTAC
Band lengths:
223-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]