DreINT0179488 @ danRer10
Intron Retention
Gene
ENSDARG00000070713 | zgc:162180
Description
zgc:162180 [Source:ZFIN;Acc:ZDB-GENE-070424-25]
Coordinates
chr6:39089600-39090411:+
Coord C1 exon
chr6:39089600-39089768
Coord A exon
chr6:39089769-39090142
Coord C2 exon
chr6:39090143-39090411
Length
374 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
TCACTTTTACTTGCTTTCAGTAT
3' ss Score
8.41
Exon sequences
Seq C1 exon
TTTGTGGACTAGCCCCTTTAAACAACCGTATTGTAGGGGGCGTGAATGCTTTTGATGGTTCATGGCCATGGCAGGTCAGTCTGCACAGCCCTATCTATGGCGGTCATTTTTGTGGAGGCTCCCTGATCAACAGTGAATGGGTGCTGACAGCTGCACACTGTTTACCTCG
Seq A exon
GTAAGATTCATATTATCACCTATGTTACCTTAATTAAACAGACCTGATCAAACTAATTCAGCGCTTCAGGCTTGTTTGAAACCTACAGGTAAATGTGTTGAAGCAAGGTTGGAACTAAATTGCACAGTTTCACCCCTCGAGGAACTGGATTTGTCACCTGTGACATAAACTATTGATCCAGACCAATAATATCTGGGTGCAGACTAGCATATGCAAGCTGAGACTTTGTGTCACAGACATGCAATGTCAGGCACAATGCACTCAATAGGGTTAGGGGCAGGATTGGGCGTGTGCATTAAAAGCATTTCATGCAGCTCAGTCAATTAAGTCATTAAGTCTAAGTCATTCTTTTTATCACTTTTACTTGCTTTCAG
Seq C2 exon
TATTACTACATCCAGTCTGCTTGTGTTCTTGGGAAAGACGACACAGCAGGGAGTCAACACCTATGAAATCAATCGAACTGTCAGCGTGATCACCGTTCACCCTTCCTACAACAATCTAACCAATGACAATGACATCGCTCTGCTGCACCTGTCCTCTGCTGTTACCTTCAGCAACTATATCAGACCTGTGTGTCTGGCGGCCCAGAACAGTGTCTTCCCAAATGGAACCAGCAGCTGGATCACAGGCTGGGGAAACATTCAGTTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070713:ENSDART00000004240:3
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=PU(19.9=80.7)
A:
NA
C2:
PF0008921=Trypsin=FE(39.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTCTGCACAGCCCTATCT
R:
TGAATGTTTCCCCAGCCTGTG
Band lengths:
355-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]