DreINT0178105 @ danRer10
Intron Retention
Gene
ENSDARG00000004748 | zgc:100868
Description
zgc:100868 [Source:ZFIN;Acc:ZDB-GENE-040801-33]
Coordinates
chr3:39344357-39344863:-
Coord C1 exon
chr3:39344595-39344863
Coord A exon
chr3:39344503-39344594
Coord C2 exon
chr3:39344357-39344502
Length
92 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
CTGTTTCTTTTTTCTCTCAGTCA
3' ss Score
9.23
Exon sequences
Seq C1 exon
CCCTTCGACGACTGGTCTACTTGTATATTTGGGCCTACAAAAACTAGCATCATTTGAATCATACTCGATGTCCAGTGCTGTCTCCAATATCATAAAACATCCAAACTACAATAGTGATACTGAAGACAATGACATCACTCTTCTGCAACTGGCCTCAACAGTGAGCTTTTCGAACTACATCAGACCTATCTGTCTGGCTGCATCCGACAGTACTTTCTTCAATGGAACTTTGGTCTGGATCACTGGATGGGGGAACACTGCCACAGGCG
Seq A exon
GTAAGCATTTACTTTTACTCTTTTCAATCAGAGTTAGAACATACAGTGTACTCCTGCAGTAGATGACACGGGCTGTTTCTTTTTTCTCTCAG
Seq C2 exon
TCAGCCTACCTTCCCCGGGGACTCTACAAGAAGTGCAAGTGCCGATTGTTGGAAACAGGAAGTGTAATTGTCTTTATGGGGTCTCAAAAATCACAGACAATATGGTGTGTGCTGGACTATTGCAAGGGGGGAAAGACTCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004748:ENSDART00000135192:4
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:
PF0008921=Trypsin=PU(41.0=97.1)
A:
NA
C2:
PF0008921=Trypsin=FE(29.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGCAACTGGCCTCAACAG
R:
ATCGGCACTTGCACTTCTTGT
Band lengths:
175-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]