DreINT0179409 @ danRer10
Intron Retention
Gene
ENSDARG00000052244 | zgc:158564
Description
zgc:158564 [Source:ZFIN;Acc:ZDB-GENE-070112-1662]
Coordinates
chr7:39397503-39398636:+
Coord C1 exon
chr7:39397503-39398050
Coord A exon
chr7:39398051-39398495
Coord C2 exon
chr7:39398496-39398636
Length
445 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
ATATTTTCTCTTGTCCATAGGAA
3' ss Score
11.73
Exon sequences
Seq C1 exon
GTTGATCCTGGAACCAGCTGTCCTCCCAAGATGAACCCGTATGAGTGAATGCGAGCCTGCTCCATAAGCTGTTAGCTTCCAGTGGTCAAAGCCATGCCTGAAGATTAGAGCCTCGTCTTGCTTAAAGCAATACAAATATACAGAAGATTCTACATGAGTCTTCATGTAGACCTTCTTGTGTTTGTCCTGCTGGATTAAGTCCTTCCTCCCCTGCTATAAAATCAGCTCTGTCCCCTTCATACCACTCCCTCTTGCACTTTCATGTCCACCTGGGAACATGCAGCTGCATTTGAGAATGGCTCCAACCTAGTCTCATGCGTCCAATGAGTGGCGAGTCAGACGGCCCTGCTCCTGAAAGAGTCTCGCAGGCCTTCCCTTTGTCAGGCCCTGTGTCCTCCTCAGAGATGTCCTCACTGCAGTCACTAGGGCCAGTGCAGAGCTGGCTGGGTCAGGAGCTGGAGAAATGTGGCATAGATGCAATGATCTACACCCGCTATGTCCTTAGCCTGCTACTGCACGACAGCTATGACTATGACCTGCAGGACCAG
Seq A exon
GTATAGTAAAAAACACTGTACAAATCTAACACTATTTGAATGGTTTTATAAATGTATTATATTTCTTTGTGTTACTTATTTTAACTGTGGTTTATCAGCAATTACGACCAGTATAATTAAAATGTATGTTTAGTAGTAGTTTGGTTATTTTAGTATTAGTTTTATTGCATTCAATAATTTTCATAAGTAGTCTGCAGATTATTTCTAAATATTTAAAAACATTTGAATCAACTTAATCCTGCTATTAAATAGGAAAATAAATGTAGTGAATGTATCTAGACTGTGGTATGCTTGTTTGGAATTTCTGCTACTTGCGTACTAGAGATGACTAGACTGAAGTCACAGAATAAGAATATGTCATACAGTATATGGTGATATTGACACTGAGAGACATTGTATTTACTGCACATACAATGTGTACTCCTATATTTTCTCTTGTCCATAG
Seq C2 exon
GAAAATGACATCTTCCTGGGCTGGGAGAAAGGAGCAGCAAAGAAATGGGGGAAGAGCAAGAGAAAGGGAGGGACTGACCTTAGTCTTGAAGAGATGAAGAAACAAGCTGCTGTGCAATGTTTGCGTTCAGCATCTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052244:ENSDART00000146171:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF153761=DUF4603=PU(7.9=50.0)
A:
NA
C2:
PF153761=DUF4603=FE(3.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCCCTTCATACCACTCCC
R:
TTTCTCCCAGCCCAGGAAGAT
Band lengths:
350-795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]