DreINT0179490 @ danRer10
Intron Retention
Gene
ENSDARG00000070713 | zgc:162180
Description
zgc:162180 [Source:ZFIN;Acc:ZDB-GENE-070424-25]
Coordinates
chr6:39092449-39093057:+
Coord C1 exon
chr6:39092449-39092594
Coord A exon
chr6:39092595-39092675
Coord C2 exon
chr6:39092676-39093057
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
AACTCATCCTCTTTCTTTAGGGG
3' ss Score
9.05
Exon sequences
Seq C1 exon
TGAATCTACCTGCTCCTGGGATTCTGCAGGAGACCATGATTCCAGTAGTGCCTAATGATCAATGTAATGCTCTACTGGGTTCTGGATCTGTCACCAACAACATGATCTGTGCTGGTTTATTACAGGGAGGAAGAGACACCTGCCAG
Seq A exon
GTACAACAATCATCAACCAAACGACACATTAAAACATGCACGTCCAAAAGTCTACTAATATAACTCATCCTCTTTCTTTAG
Seq C2 exon
GGGGACTCTGGTGGTCCAATGGTGAGCAAGCAGTGTTTAGTGTGGGTTCAGTCTGGTATCACCAGCTGGGGTTATGGCTGTGCTGATCCATATTCACCTGGAGTTTACACCCGCGTATCACAATATCAAAGCTGGATCAACAGCATCATCGTCCAGAACCTTCCAGGATTTGTCCTTTTCAACTCTTCAAGCACATGCTCAAGTGTTTCTATGACTTTACCTAATTCTACTGCATTACCTACTTCTACTATTTCAACTGCATCCCCAACTACTACTACTACCACAAAAATTTCCACGATCTCATCTGCATCTACTAAACCACCTACTACCTCACAAACTTCTACAACAACTACTACGAATTTAAGACCTCCGCCCAATCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070713:ENSDART00000004240:5
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=0.336
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.5=35.2),PF0103312=Somatomedin_B=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGGGATTCTGCAGGAGA
R:
CACTGCTTGCTCACCATTGGA
Band lengths:
169-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]