DreINT0141075 @ danRer10
Intron Retention
Gene
ENSDARG00000102727 | si:ch73-182e20.4
Description
si:ch73-182e20.4 [Source:ZFIN;Acc:ZDB-GENE-131127-155]
Coordinates
chr25:24990342-24991069:+
Coord C1 exon
chr25:24990342-24990515
Coord A exon
chr25:24990516-24990621
Coord C2 exon
chr25:24990622-24991069
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TTTTCTTTTTCTGTATACAGCTT
3' ss Score
9.35
Exon sequences
Seq C1 exon
TCTCTCAGTTTGTGGACGTCCAAACCCGCAGTTAAACCCTCGTATCGTGGGTGGTTTAAATTCAACTGAGGGCGCATGGCCATGGATGGTCAGTCTGCGCTACTATGGAAACCATATTTGTGGCGGCTCCCTCATCAACAATGAATGGGTGCTGACCGCGGCTCACTGCGTCAA
Seq A exon
GTAAGTAAGACACGTCAAACACAAACTATAATAAATTACCTTGTTTGTTGGTGGAAATGTTCATGTATCAGTTTTTCCATCTCTTGTTTTCTTTTTCTGTATACAG
Seq C2 exon
CTTAACTAGGTCCAACATGCTTGTATACTTGGGAAAGTGGAGACGTTATGCAGCTGATGTCAATGAAATCACCAGAACTGTCAGCAACATCATTCCACATCCTTCCTACAATAGCACAACTTATGATAATGACATTGCTCTGCTGCAGCTGTCATCTACAGTCCACTATTCTGACTACATTAAACCCGTTTGTTTAGCAGATGAGCAAAGCAACTTCCCTCCTGGCACCAGGAGCTGGGCCACAGGCTGGGGGCGTATCGGAGTTTCAGGCAAAGGTGGTATAAGAGGCAGAACCACAGTGTCTGTGCCTTTACCTCCTCCTGGGATTCTGCAAGAGGTTAAGCTTAAAGTGTACAGTAATGCAGACTGTAATAGTATTTGTCATGGACGAATCAACCCCAACATGATTTGTGCTGGTACACGAAGTGGAGGCAAAGCAACCTTTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102727:ENSDART00000171627:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(17.6=72.4)
A:
NA
C2:
PF0008921=Trypsin=FE(66.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGATGGTCAGTCTGCGCTA
R:
TGTAGATGACAGCTGCAGCAG
Band lengths:
253-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]