DreINT0138649 @ danRer10
Intron Retention
Gene
ENSDARG00000042213 | si:ch211-233h19.2
Description
si:ch211-233h19.2 [Source:ZFIN;Acc:ZDB-GENE-061009-14]
Coordinates
chr18:8989244-8991469:+
Coord C1 exon
chr18:8989244-8989370
Coord A exon
chr18:8989371-8991290
Coord C2 exon
chr18:8991291-8991469
Length
1920 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
TGCGTGTTTCCATTTTTAAGGAC
3' ss Score
9.32
Exon sequences
Seq C1 exon
TGCGTGTCCTGCAGGCACCTGCGACGGCTGTACGTTTCTCTTTCTGTGGGAAAGCTCCAGTGTGTGTCCACGCTGTACTGAGGCTGACTACCACGCCATTGAGGGAGCCTGTAAAGCTGGAGTGCAG
Seq A exon
GTGCCTGTTTTCACTGGCTATATTAATACAGTCTGCTGTTTTAACAATGTCAACCGTGAACAATGTCTTTAGACGTGGTAACTCAAAATATTAGAAAATAATACACACCTGAATTTCAGCAGTTATTGCATATGCCTGTTGAAGAGTGACTATGTATTTATATAAATGACTGAGAAATTAGTTATGATGACTGTGCGTGTGCATTTGCAGGACCTAAATGCTATGAAAAACTGGTTTTGATGTGGAATTGCAATTTAATGCACAATATTAATCAAACAGTAGGAATACTAGGCTTGCTGATGTAAAAAATACAAACTACTCCGATTAGTCTGGAAGCGTCTGTCGTGACTCATGTTTATCATCAGGAGTTTATCTGGGGTAAGTTTGTTTTCTGCAGAACTCCATGTGGCAATGCATATGTGGAATATTCCTCACATTAAAGAAGCACCAAAACAAAAATCACAGTGTGTGTTCACGTGTTTGTGACAGGTGCTGTTTGAGCCATGATACCATACTTGATGAAACAAAACACTTGTCAGCTTGTTTGTCACTAATGTAAAAAGGAATAATACAAATTAAGTACACTGCTGTTCAAATTTAGCCTTAATAAGATTTATTTTTTAAATAATACTTTACAAATAGGTAATACTAATGTGTAATCTATAAATACTTTTGTAATGCAGATTAATTAATGCTCATTTAATCCACTCCTTTAAGAGGACTATATTAGTGGACTATTGTAAGGAAAAGTAAACGAGGGTAGAGTTGGCTATTTTGGATACAGCATATGTCTTCCCTGACCTAATGTGTAAGACATGGGTGAAAATAGTCTTTTTTTTTTTTTTGGTGTACAAAAATGTTCTTGGAGCTTCATTTGAATATTTAATTTAATTTCTTGGTAATTTGACATGTTCGTTCATGGAAGAAAACTCAGAAAGGGGAGTTCAGAAAAAGCGTAGATCTTTTTTTTATGCTCTAACAGCAACTTTTTGGACTCAAAAAGGGGGAATTAAAACCCCCCTAATTAACGCTTGATTCCCCCTGAAGGATGTTAAAATGATTTGCATGGTGGGATCAGCCCTTTTATTGTGAGAAATGGCTATTTCTGATTTTAAATGATAATTATTTTAAAAAATATGTAATATAAATATACATTTGACCACCCCTTTAACGGTTCATACCATTGGGGATGCATAATCGCGCCTGCCAGTCTATGCAAGAAAATATTCATTCATCAGTCTGAAACTGGTAGATCTAGAGCCATGTAAGACCATTTGTTTGTACATATAGCCTAAAAGTAAAGTCAAATTAGACACATAGGCCGCATTTACACTGCACTGTTCAAGTGACTCAATTGCGAATTTTTTTTTTTCTTCCATGTGGCACAGATCGGATATAGCCCATGTAAATCGTGTAAGCAGGAACAAATCACATGGATTCCGATTTGCTCAAATCAGATTCAGGTCTTGTGGAATATGTGGAAATTTGTCCGATATGAATCGGATCAGTGCTCTCGTGTCTGCAGTGTAAGCAGCTAGATCGGATTTTCACCTGTCACGCATTATTAAAAATCGTCAGCAAAACAGTCGGATACAGTCACAAAATCGGAATTGACCATCAAGATCTGCAGTGTTGACCTACAGTAACCTCTAAAATAGCTAATCAGAGGATACTGTAGTCAGAATACACTAAATATCCCTCAACACTTAACTACGTTTAAGTTTACGAACCACAAATCAAAACTTAAATGTGTTTTATTAATACATTAGATCTAATTTAACAAAATACTGAAGTTTGTATTACACAAACTAACATTACCGGAAAAGTTGACCCCTCACTCCTGGGTTTTCAATGCATAATTCGTACCCTGCTTTTATTTTTGTTTGTGTAATGGTATGCATGCGTGTTTCCATTTTTAAG
Seq C2 exon
GACACAATTTATGTGTGGACTGAACCTCGGCTGTGCACCAGTGGCCTGACTCTCCCTCTGAAGAGAACGTCTCCATGTGAGGCCATTGATTTCTGGCTGAAGGTGGGCGCTGGGCTCGGGGCGTTTTGTGCTGCTCTGCTCGTCTCCCTGACCTGCTACTTTTGGAAGAAAAACAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042213:ENSDART00000145226:19
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:
NO
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:
CGTGTCCTGCAGGCACCT
R:
TTTGTTTTTCTTCCAAAAGTAGCAGG
Band lengths:
302-2222
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]