DreINT0140649 @ danRer10
Intron Retention
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35254630-35256696:+
Coord C1 exon
chr20:35254630-35254830
Coord A exon
chr20:35254831-35256447
Coord C2 exon
chr20:35256448-35256696
Length
1617 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TTGAACTCTTTCATTTTCAGGAG
3' ss Score
11.03
Exon sequences
Seq C1 exon
GTCCAGTCCTCTGTAGCAGTTGGGACCCCGGACTACATCTCACCAGAGATCCTGCAGGCTATGGAGGACGGGAAGGGAAAGTACGGGCCCGAGTGTGACTGGTGGTCTCTGGGGGTCTGCATGTATGAGATGCTGTATGGAGAGACGCCTTTTTATGCTGAATCTCTGGTGGAGACGTATGGAAAGATCATGAACCATAAG
Seq A exon
GTTAGTTTGCATCAAATGCCAACATGTGTTTCTTTGCCACATGCTAATTCCAGTGTGAAGTTAAAGGTGATGTTTGTCATTTTGCAACACATGATGTAAAACATGGCCTTCATTTTGACTAAATTATACTGTAAGTGAGCCAATCAATTGTGAATTCCTTTGAATAGTATAGAAATACTGTGTTGCTGTCAAAACATCAAATGCTAATTAGAAAATACATTTTTTAATAAACTTTTGTGATGCTACTGTTGCAAAAATGACACACTTCACCTTTAATTGCGGAGGTACCCTGTTTGCAGTAGAGTAACTAATAGAGATAGTTCACCCAAAACATGAACATTCTGTCATTATTTACTCAAAACCTGTTTAAGTCTGTTGAATACAGAAGATATTTTAAAGAATGTTGAACATTCTAAGCATGGACTTACTAATGATTTTATATGGCTACCAGCTTCTAACATTCTTCAAAATCTCTTCTGTTGTATTCAGCAGACGAAAGAGGTTCGGAACCACTTGAGGGTGATTAAATTATTGTTTGGTGAATTATCCCCTTGATACCTTGGTAATTCATTCTTTCTTTTTTAGTTCACCAGTGTAATAGTTTGTGTCTTGTATTTAGTATAAAACCCCAAAAATCAAGCATGGGTTTGAATTACAAATTCTTTTTGTCTTTCCTTCACTATTTTATTCTGGAATTAGTCGTCTCAACCTAACGATGAGGTAAAAAAAAACACCTTTTCATCAAAGTTTATTTAATTTTGTGTGGAGCTTAACCGAGCACATCTTAAACCACTGTAGAGGCCCCGATATACTTCAAGCTAAATTAAAGAATGAAGTGGCGTGCAGTCATTTTAACCAATCAGACAAAACCTAAACTTAGTTTGCAGTTAATCCAGCATGCCAAAGTTAACTTTCCAGAAGAGTTGGTAAACACCAGAGTAGATGTGGCCCTGCGGCTCTGTCTTTTTTGACTTGGAAATATTCTTAGGTTCACTTCCTCTGTTCAGTCTATTGAGGTCAAGCATCTACAAGTAAAAACATGAACACAGAAAAGCTGCTTTATAACGACGTGTAATTCTGATTGAAAGCAACATTGAGCATTATTTTCAGGATTAAAACTGTAAAGTCTAAATATAAATAAGCATGACATGACTTGTCTTGGATTGTTTTTCTTCCTATTATCTACATTGCTTTTACTGATCCTCATTGCTTTCTTAACTGCTGTGTTTTTAAGACTATAATTTTGGTTGCTTGTTTTCTGTTGTCATACTGAGTATGTTTACATGGACACCAATACTCTGATTTTAATACGATTAAAACAACGCTCTGATTAGGGGTCTGCCATGTAAACAGCGATTTTTGATAACCTTAACCTGACTAAAGTCTTAATCAAACAAAACAGAAATTGAATTAAGACGTGGAGTATTTATATTGTAGCCGCATTATTAAAGTGCAGTATTTGCTAACAGTATAAATCTTTTCATTTTTTACCACTGAATGAAGAGTGAATTTTAACTACGCTGTGAGTATATCGGGTCCTTAATTAGAATACTGAGTGATGTCTGATTGAGCTTCACTGTGCACTCCTAAAGTATATTTGAACTCTTTCATTTTCAG
Seq C2 exon
GAGCGCTTCCAGTTCCCACTTCAGGTGACTGATGTGTCCGAGGATGCTAAAGATCTTGTTCGGCGGCTGATCTGCAGCAGAGAACACCGGCTGGGCCAGAACGGTATCGAAGACTTTAAGCAGCACCCCTTTTTCACAGGCATCGACTGGGACAACATCCGCACATGCGAAGCCCCCTACATCCCTGAAGTCAGCAGTCCCACTGACACCTCCAACTTTGATGTGGATGACGACTGCCTCAAAAACTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464:ENSDART00000040456:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(42.6=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGACGGGAAGGGAAAGTA
R:
AAGTTGGAGGTGTCAGTGGGA
Band lengths:
357-1974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]