DreINT0180320 @ danRer10
Intron Retention
Gene
ENSDARG00000016538 | zgc:55888
Description
zgc:55888 [Source:ZFIN;Acc:ZDB-GENE-040426-834]
Coordinates
chr4:9471303-9472667:+
Coord C1 exon
chr4:9471303-9471522
Coord A exon
chr4:9471523-9472512
Coord C2 exon
chr4:9472513-9472667
Length
990 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
TCACAAATTTTGTCCCTTAGGGC
3' ss Score
9.77
Exon sequences
Seq C1 exon
CTCAGTGTGGTCAGGCCAAGATGGAGCCCTGTCGACTGCCTGATGGTTTGGCACAGGTAGTGTCCACTGAGAATGGTGCATTCAAGGTGGAAAATGTGAGCGAGGCATGTCCGAATGCCTGGCCGTGGCAGGCTAGTCTGCAGAACGATGACACACATTATTGTAGTGGTGTCCTCGTTCATCCACGCTGGGTTCTGGCACCACGCCACTGTCTTGTCAA
Seq A exon
GTAAGCAAATTACATCTGATCAATTTTGCATTCATTGTTACTAGGTTCCTTGTGTTATGCTTATTGATGCCTGGTCAGATGAGACACGCATTACTGTTCCCTATATTTTATTCAAACTCTTTTCCCCTCTTATATTCACATGTTCTGCATTACCTTTGCCTAAATGTAAAGGTAAAAGCAGTGAAACAATTAAAAAAACAGTATCTTTATCATCAATATTAAACAGCGTTTCTCAAACTTGGTCCTCGCTCCTTACAGATCTGCATATTGTACATGTCTCTCTTATTTAACACAGCAGAATTAGATGACTATCCTGTTAGAAGAGCTCCATCTGACTTCCATGTACAGTGTTGAAGATGTGTTTTGGAGGGTAAACCTTTCGATGTGATTTAGGATGTTCAATCTTTTAAATCTGCGGTGTTTGAATCTTTTCCTGGAGGCTCGTTGTCCTGCAGAGTTTAGCTCTAGACTCACTGGAAACCTCTGAGAACATATGTTGGAGCTGATTGACTATAAACTGTGCAGGACACTTGACCTCCAGGAGCATGAAGTGACATCCCTTGATTGTGGTGCAAGAATGAGCTTTTCAATACATGTAATAATATATCGGCAATGTGCTTCAGCTAAACATGCTAAACAGGCTACCAAAATGCTCAATTGCGCCAGAGGAAATGCTGATATAATACAATTTTTACATATACAGATACAATTTTAAAGACTGTAAGATCAGATGTCCATACTGGGAGCACTTTGATGGATGTTTTATATCCCCAAGAAAAATGTTAAGTTATTTACCACCTATTAAACTGAAAAAAAAAATGATAATGTTTTAATGAGAAGTGTTTATCCCTTATTGAAAAAGTTATGCAATATTAATCTTCCCATGTAATGTGCAAAAAATAATAAATCAATAAATAAGCAAATACATATACAGCTAAGTGCGTCTGTATGTAAAAGCTTTCAGTGATGTTCACAAATTTTGTCCCTTAG
Seq C2 exon
GGCAGGAGATGTGGTGGTCTTGGGAGCTCATGACCTGAACTTCATGTCTGGTCAGACTGTAGATGTGGAAAGCGTTCAGAGTTTGTCTCACAATGGCAGGAACCGGACAGTGTCTGATCTCTCCATGATCTACTTAACTGTTCCAGCTCGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016538:ENSDART00000012659:9
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=0.094
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.7=59.5)
A:
NA
C2:
PF0008921=Trypsin=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGTGTGGTCAGGCCA
R:
AGAGATCAGACACTGTCCGGT
Band lengths:
342-1332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]