DreINT0065653 @ danRer10
Intron Retention
Gene
ENSDARG00000036041 | f2
Description
coagulation factor II (thrombin) [Source:ZFIN;Acc:ZDB-GENE-030131-4606]
Coordinates
chr7:38484474-38484793:+
Coord C1 exon
chr7:38484474-38484581
Coord A exon
chr7:38484582-38484666
Coord C2 exon
chr7:38484667-38484793
Length
85 bp
Sequences
Splice sites
5' ss Seq
TAGGTTAGA
5' ss Score
2.99
3' ss Seq
GCTCCCGCGTTGTTCTACAGACT
3' ss Score
6.74
Exon sequences
Seq C1 exon
ATGCTCCTTTGGACAAGTTTGTGGAGGAAGGTGGTGGACGAGAAAGAACAACTCTAGACCAAAGGAAAGCTTTCTTTAACCCCCGCAGCTTTGGAAACGGAGAGCTAG
Seq A exon
GTTAGAATCTAATACATTCACTAAAGGTCTGAGCTCTTGTACGATCCACTAATAATTAATATGATGCTCCCGCGTTGTTCTACAG
Seq C2 exon
ACTGTGGAGAGCGCCCCTTGTTTGAGAAGATCAACAAAGCAGACAAGAATGAGAAGGAGCTTCTGATGTCCTATACTGGAAGCAGAATTGTGGGAGGAGACGAGGCTGAAGTGGCTAGCGCTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036041:ENSDART00000052325:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.277 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093965=Thrombin_light=PU(40.8=54.1)
A:
NA
C2:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(5.2=30.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAGGTGGTGGACGAGAAA
R:
CCTCCCACAATTCTGCTTCCA
Band lengths:
181-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]