DreINT0144184 @ danRer10
Intron Retention
Gene
ENSDARG00000096184 | si:dkey-21h14.14
Description
si:dkey-21h14.14 [Source:ZFIN;Acc:ZDB-GENE-110913-3]
Coordinates
chr4:11072448-11073056:-
Coord C1 exon
chr4:11072742-11073056
Coord A exon
chr4:11072667-11072741
Coord C2 exon
chr4:11072448-11072666
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
TTTTGAGTCTGTTTTAATAGACT
3' ss Score
4.19
Exon sequences
Seq C1 exon
CTCATGTTCCTCTCAGACTGCGTGGAGGGGGCGGCCGGTGCTCTGGGAGGCTGGAGGTGTATCATAACGCTGTGTGGGGCTCAGTCTGTGATAATCTCTGGGACATCAGCGATGCTCAGGTGGTCTGCAGGCAGCTGGGATGTGGAGCAGCACTGAGGGCTGATGGAAATTCAGCCTTTGGTGCTGGTGAAGGTGTGGTGTGGCTGAACAGAGTCCAGTGCAGAGGGAATGAGCTTCACCTGTGGGACTGTCCTCTCTCCCTGAACAACCACACTGACTGCTCCCACAAAGAGCACGCTGGACTCACCTGTACAG
Seq A exon
GTCACTGACAGATTTTTTTATTAAAGTGCTTTTAGTATTTTTAATTTATGCATGATTTTGAGTCTGTTTTAATAG
Seq C2 exon
ACTTGACAGGTTTGCCTGTGTCCACTACTTCTGCCACATCAGCATCATCTTCTGCTGCAGTTTCTCAGACAGTGAGCTCAACATCAGTCTCTCCTCCACAAAATGGTCCAGAAACTCTCCCAGTCCCTCCAGTGCTGGTGATTGTACTGGGGGTTGTGCTCTTACTGCTCTTAGTGCCGCTGCTTATACTGATTCAGCAGAACAGAGTGATGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000096184:ENSDART00000150566:9
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=0.274
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=93.3),PF151021=TMEM154=PU(13.4=14.3)
A:
NA
C2:
PF151021=TMEM154=FE(64.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTGGTGCTGGTGAAGGTGT
R:
GCAGAAGTAGTGGACACAGGC
Band lengths:
174-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]