DreINT0139577 @ danRer10
Intron Retention
Gene
ENSDARG00000075487 | si:ch211-267e7.3
Description
si:ch211-267e7.3 [Source:ZFIN;Acc:ZDB-GENE-070912-265]
Coordinates
chr2:20910370-20910799:-
Coord C1 exon
chr2:20910644-20910799
Coord A exon
chr2:20910541-20910643
Coord C2 exon
chr2:20910370-20910540
Length
103 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
GTTTTTTGTCCTTCTCTAAGTGC
3' ss Score
6.13
Exon sequences
Seq C1 exon
TGTTCAGCGCGGTGTGGTGGCCGAGGGGTGAGGAGTCGTGATGTCCGCTGTTCAATGGAGGCCAGACTTTGTAATGAGTCCACCAAACCAGTCAGCCAGAGAGAGTGTGAGGGGCCGCCCTGTGACCGCAGGTGGACCGTCTCTGACTGGGGCCCG
Seq A exon
GTGCGTTTCAGAAAACATCCTGCCAAATATCACATAGAAGCTTGTCAGTTTCATTTGTACATTAAACATGACATCATGTGTGTGTTTTTTGTCCTTCTCTAAG
Seq C2 exon
TGCTCAGGGCCGTGTGGGGAGGGCAGGATGAAACGGTACGTGGTGTGTAAGAACAGCAATGGGAAGGTGATTTCCGATGGTCAATGTGATCCAGAGCTGAAGCCACTGGCAGTACATCCATGCGGCGACAAAAACTGCCCCGCTCACTGGGTGGAGCAGGAGTGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075487:ENSDART00000114199:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(81.6=76.9),PF0009014=TSP_1=PU(13.0=13.5)
A:
NA
C2:
PF0009014=TSP_1=PD(83.3=78.9),PF0009014=TSP_1=PU(12.3=12.3)
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:
GTCGTGATGTCCGCTGTTCAA
R:
TTTTGTCGCCGCATGGATGTA
Band lengths:
255-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]