DreINT0138655 @ danRer10
Intron Retention
Gene
ENSDARG00000042213 | si:ch211-233h19.2
Description
si:ch211-233h19.2 [Source:ZFIN;Acc:ZDB-GENE-061009-14]
Coordinates
chr18:8971016-8973022:+
Coord C1 exon
chr18:8971016-8971105
Coord A exon
chr18:8971106-8972916
Coord C2 exon
chr18:8972917-8973022
Length
1811 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
TTTCTTCCTCGTATGATCAGGTG
3' ss Score
8.39
Exon sequences
Seq C1 exon
ATTCAGAACGATCAGTGTCAAGAGATGGACCAGGATTCAAGTAATAAATGGATCAAATTGACCAATCATGGAGAGTGGGGAGCACATAGT
Seq A exon
GTAAGTAAAAAAAAAATCTTATTTATTTGATGTATAATTTTAGTTTTGTGTGCACTCATGCTTGCAAATTGCATACTTGTTGTCAAAAGTTTGAATTCTGTCAGATTTATAAAAATATTTTTAAATGAATGTGTGGTGTTTATCTGAAGGTTAAGTATGTAAGTTTGACACCTAGTGGATAAACTAGGTGTTGCACTTCTGGATCAAAACACATGCAAGTGTAGGTTGCCAGATTTATGCGAGTGTGCCTGACTATCGAGTCTAAAGGCTGATTTAAACCATTTTCTATCTAAAAGCAACGGCACACGATAAAAGGAATATTTTTCATACTAAAAGGAGTTTTTGTCCCTAACCAAGACCTGAAATCGTATTTTAGAAACAGCTATTTCTCAGCGTTGAAAACAGGATGAACTATGATCACCTCAGGTACACCTCATGTACTTTGTGTTAAATGCTAATATTGTGAATTTGAATGCCATTTTATATGACATTTATTGCCATACTACTGGTTGCAGCAGCAGATAGTTCACCTCAGATCTTGAAAATACAATAAACTGTTTAAATTAAACTTTAGACCTGTGACTTGAGTTACTAAACAAATATCAATCATTCAGCATGTAAAAATAATAATGTCAAAGAGATTTAATGTGTATTAATTAAATTATTAACCTTACCGTTTCATGAGCGAGTGCATATTCTGTGCTTCTGAATGGCTTAATTTACATTTCGGTCGTGTTTTGTCTGGTGCAAACAGCCAAATTGCTTATTACCGCAAATGTCACATAGCGGGTTGTTAGGACACGGGATTACATTGTCACCTGCTCACCTAAAATATTTATATTATTTGCTAATTAATAACCACCTCATGTGGAACTGTGAATCTGCATCTCATTTCGGAGTCTGCTACTGTCCACCGGGGGTCTCATTTCAGTCACAGACTCACACTTTGAGAGCTTTTCTGACTGAATCATTCAAATACACAGTTTTCCAGTAAGGCAACCCGGGTTGCTGAAATATAATTGGCTAAACTGTAATATATAAAGTTTTTATTTACTACAAAAAATCATTCCACATAAATCTGCTGTTTTTCCACATAAATCCACCTGTTTTTTTTTTGTTTTTTTTTTGTGCAGAATTAGCAGAAAATGTCCTCAGATATTCTGTCTTTAATTATAACTAATAGATTGAAATCTTTTTTTTCCCCCCTGAAACTAAAGTAGCATTTATTCCACTGTTTTCAATTATTCATAATCCACAGGAAATCATTGTATTATGATGATTTGCACTTTTCTTAACTCAGTTGTGCTGTTGAGTATTTTTTTGTGGAAATTCTGATGCATTTTTATCAAATTTCTTTAAATGAAAGTGGCAAGAGAATGCTCAACACAACATATTTAAAATTGAATTGCCTTTTAACATTATGCAATATTTCCTTTCTTTAAACTTGTAAATTAACAGGGTTATTTTCAGTTTCTCAGTGCTGTTATTGAGTCATTTCTGTAAGTTTTTTCGCCCTTCACTTTTGTCAATTGGTGAAGTTTTGTTTCTCTTCACTGTCGCCACTGGCTTTCTTGGTTTGGGACTTGTGGAGCTGCGCATTGATGGATTTGTCTTTCAGTGTTTGGACTTTCAGCAGTGAAAATTAAACTACACTGAACTGAACTAAACTGAACTTCAACTCTGAAAACTGGACTGACAGTTTCAATTTACTAGAACTTTTATGTTAAGCTGCTTTGACACAGTCTACATTTGTAAAAGTGCTATAGAAATACAGATGGATTGAATTGACGTTTTCTTCCTCGTATGATCAG
Seq C2 exon
GTGAATCTTAAATCTGGCACTAATATCCTGTACTGGAGAACTACTAGAATCTTGCTCGGCTCTAAAGCAGTCAAACCTGTGCTTTTGAAGAACATCTGGATTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042213:ENSDART00000145226:5
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:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=PU(0.1=0.0)
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:
TCAGAACGATCAGTGTCAAGAGA
R:
CAATCCAGATGTTCTTCAAAAGCACA
Band lengths:
191-2002
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]