DreINT0140646 @ danRer10
Intron Retention
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35240388-35242079:+
Coord C1 exon
chr20:35240388-35240483
Coord A exon
chr20:35240484-35241930
Coord C2 exon
chr20:35241931-35242079
Length
1447 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
TTGTTTTTCTCTCCTTCCAGTAC
3' ss Score
11.08
Exon sequences
Seq C1 exon
ACGGCATGTTTTCGGGAGGAGCGGGACGTGCTGGTGAATGGGGACTGTCAGTGGATCACGACATTACACTATGCTTTCCAGGACGAGAACAACTTG
Seq A exon
GTGCGTGAGAAGTCTCAAGCTCACATTAAGGCCGATTCACATTTGCTCGATAAGCTGCCGAGGGGGAGATAATGCAATGATTATCAATCAGAGTTTCAAGGCACACTATCTTACAATATCTGTGTCATGTTGTGCATATAGCGTGACTGGAGAAGAGGGTCTCTAATATGAATTATCATTTTGAGTTCAGCTCAGGAGTGGGAGTGTAAGGGAATGAAACTGGAGGGAGAGAGCGATTTGAAGAGGTTTTAGATCAAAGACTGTCATGGACAATTGATATGGGATGGGTAAATCTAAAAGGGAATTTTTAACCATATAGACTGCCTGTGATTAGGACTGCGCCATATGACTGTTATATCATAAAGACAAAATAAAAATCTATTGTTTTATATTATACTATATGATTTATTGCATGGTGTCACAAAAAACATTGTTTACAGTACTAGTTTACATTGAGTGAATTATCACATGCCATCATGGAAAAGAAAACATAAACATGTACAACAGGATCATGAGGAAGCCATTTTGAAAGTACAATGTATACCTTTTGCATTTTATTTAGCAATATTTTTTATTTTTATTTCAGAGCTGTAATCATTTTTTTTTTAAAAGTGTTTTATATTACGTTAATATTTATTTTGTTTTACCCTGAATTTCTAAATAAAGTGAGAAATAGGGTCACATACAGTGCTCAGCATAAATGAGTATACCCATACGCCAATATTTTTATCCATTTCTCAGTGAGTATATGTAATATATTTTGGTGCATCTGAACAAAATTATTTATTAAACAGATATATTTATTTATTAAAATAATATTTTAATCATTGAACATCTTTAAAAATAGAAAGACAATACATTTTTAATTCATGCAAAATATGGCAAAAAAAATTACAAACTACAAAATTTCAGCAAAATTTTGTATATCTTTTTGTTTCTCTTGATTTTTTTCCTCTTTTTACAAATTTTTATTAATATTTTTTCCCTTTAACATACAAATTTTTGGACTGGTTTGTAAGTTATTTTGTTAGATTAGCTTCAGATTTGGCTTCAGTACTGACTAGTCCAATGTGTATGCACAAATATAATATTGTAAAGCATCCTATAGAAAATATTCATTTTAAAGACAGATTTGTGAGGAGTGTACCCCAATATGCTGAGCACTATATAAATGAATAGATTTCTCAGTATATACTTAAAACAAAAAAGAAACGGTCCTTTACATGTGGTCAAAATATATAATTATTGATTGAATTTACAGAAATGGTGCAATATTGTGATAAATATATACTATAAATAAATATCGTTATCAGGATAGCAGATGACTTATATCGTGATGTGAGATTTTTGTTGTGTCACCCAGCCCTACTTGTGGTTGATTTTTGTGTTTCCCATTTCTTTTCTCCTATGTCTGTCTTAATTACTCCTTGTTTTTCTCTCCTTCCAG
Seq C2 exon
TACCTGGTGATGGACTACTATGTAGGGGGAGATCTGTTGACTCTGCTTAGTAAGTTTGAAGATCGTCTGCCTGAAGACATGGCCAAGTTCTATCTGGCCGAGATGGTCTTGGCTATTGACTCTGTGCATCAACTACATTATGTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464:ENSDART00000040456:4
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:
PF0006920=Pkinase=FE(11.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTTTTCGGGAGGAGCGG
R:
TGTGGACATAATGTAGTTGATGCACA
Band lengths:
240-1687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]