DreINT0178197 @ danRer10
Intron Retention
Gene
ENSDARG00000055644 | zgc:101788
Description
zgc:101788 [Source:ZFIN;Acc:ZDB-GENE-050320-109]
Coordinates
chr6:39105969-39106611:+
Coord C1 exon
chr6:39105969-39106182
Coord A exon
chr6:39106183-39106497
Coord C2 exon
chr6:39106498-39106611
Length
315 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAAT
5' ss Score
1.48
3' ss Seq
ATCCTTGTTTTTATGTGCAGCCT
3' ss Score
7.17
Exon sequences
Seq C1 exon
GGGGATTCTGGTGGTCCAATGGTGACTCGGCTGTGTACAGTGTGGATTCAGGCTGGTATCACCAGCTGGGGTTATGGCTGTGCTGACCCCAACAGTCCTGGGGTTTACACTCGTGTGTCACAGTATCAGAGTTGGATTTCAAGCAAAATCAGTCAGAACCAACCAGGATTCATTCTCTTCACCCCACCAAGTTCATGCACCTCCAGCAGCCTAA
Seq A exon
GTAAATCTTTTTGGGCACACTTTACACTAAGCTTACAAAAGTTAATGTTAGTTAATGTATTTATTAATTATAGTTGAATATTTATTAATGTATCATTAAAATCCTAATTTATGCTTGTTAACATTAATGCACTGTGAGTTAAAGTAAACTGACTATGAACAACCTTATTTTCATTACCTAACGTTGACATAAATATATACTGTAATACATGTATTGTTCATTGTTTGTTTATGTAAGTAAATTTAATGCAAAGAGTTACCTAGTTTTTACTCATTAAAAAAATTATGTTTGTTTTATCCTTGTTTTTATGTGCAG
Seq C2 exon
CCTCATCTTCCTGTAGCGGGAGATGCAATGAGGTGTACAACACACTCAATCGCTGCAACTGCAATGCCAACTGTGCTACAAAATGCTGCATGGATTACAAACAGCGTTGTGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055644:ENSDART00000003716:6
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:
PF0008921=Trypsin=PD(19.5=62.5),PF0103312=Somatomedin_B=PU(0.1=0.0)
A:
NA
C2:
PF0103312=Somatomedin_B=WD(100=100.0)
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
(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:
GGGATTCTGGTGGTCCAATGG
R:
GGCACAACGCTGTTTGTAATCC
Band lengths:
326-641
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]