DreINT0179507 @ danRer10
Intron Retention
Gene
ENSDARG00000077217 | zgc:162184
Description
zgc:162184 [Source:ZFIN;Acc:ZDB-GENE-070424-83]
Coordinates
chr17:45674825-45675261:+
Coord C1 exon
chr17:45674825-45674999
Coord A exon
chr17:45675000-45675186
Coord C2 exon
chr17:45675187-45675261
Length
187 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGC
5' ss Score
7.79
3' ss Seq
TTTTTTCTCTTCAATATCAGAAA
3' ss Score
7.98
Exon sequences
Seq C1 exon
GGTGTGCGGCTCCTATTCTGACATGGACGCCGGTGTTGTATCTGAGGCTCTGCTGGACTTCACCGGTGGCATCCATGTGCGTTTCGAACTGGAAAAACCTCCCCTTGATTTGTGGAGCTTGATGGACCGAGCTGCCAAATGCAAGGCTCTAATGGCTTGTGGCACATACCCGGGG
Seq A exon
GTAAGCAGTGACCACAGGCTTTTCTTTGACAGATATGTTCATATAAAATGCTGTCATTGAACATCAGATGTTGTATTAAAGACTTCTTTATAGTCTTTTCAACCAAATATGGAATTATATAGCGAACAGGGAACAGTTGCATATTTCACCTGAAGTGTAACCGATTTTTTTTTCTCTTCAATATCAG
Seq C2 exon
AAAACATCTGCAAATACAGAATTACCTAATGGCATTGTTCAAGGGCATGCATATTCAGTGACGGGGATTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077217:ENSDART00000155037:7
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:
PF0064816=Peptidase_C2=FE(19.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGCGGCTCCTATTCTGAC
R:
ATCCCCGTCACTGAATATGCA
Band lengths:
242-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]