DreINT0011226 @ danRer10
Intron Retention
Gene
ENSDARG00000039665 | FO834840.1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E7F8C1]
Coordinates
chr20:7382957-7383801:+
Coord C1 exon
chr20:7382957-7383099
Coord A exon
chr20:7383100-7383579
Coord C2 exon
chr20:7383580-7383801
Length
480 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGT
5' ss Score
7.07
3' ss Seq
TGTATTATATTACTTTTCAGAAC
3' ss Score
8.35
Exon sequences
Seq C1 exon
ATATGCAAAGGGATACGACCCTGACAACTGGATATCTATCGATGTGGACACAGCTGAGATCAAACTGAACAAGGTTCCAGATCGCGAGTCTCCATTTGTTGTAAATGGGACCTATTATGCCAAGATCCTCTGCATTACAGATG
Seq A exon
GTTAGTATAAGCAACAGGTCAGAACATTATACTACTTGAGTGGGTCTCATCCCTAATATAAACTGGAGTTCTGCAAAAGTATTGAGAAATTTAAATGTTGAAAGGAGTTTAAGGAGTTTACCACAAAAACATTACACTTCTTCATGGTGATGGGCTACAGTAGAAGTACCTATGTGAATATGAACTCCACCCGCTCTATCAAATTCAGGGGTCACCAATCTCGGTCCTTGAGGGCGGGTTTTGCTCCAACTTGCTTCAACACACCTGCCTGAGTGTTTCAAGTATACATATAAGACCTTGATTAGCTGTTCAGGTGTGTTTGATTAGGGTTGGAAGTAAAATCTGCAGGACAACGGCCCTCCAGGAACAAGTTTGGTGATCCCTGATCTAATTGAACGCAAATGTACCAAACAAAAACATCACATGCTTCACCTTTAAAAAGTTTAATTATATGCTGTTTTGTATTATATTACTTTTCAG
Seq C2 exon
AACTGTCTGCTAAAACGTCCACAGGGACTATAGCCTTGCAGGTGGAGGATCTGAATGATAACTGCCCCATACTCCTTAATAATATGCAGATTGTCTGCAGTCATACCAAAGTAGTGAATGTCACAGCTGAAGATATAGATTCCGATCCCAATGGAACTCCATTGGAGTTCAGTTTAATACAAGAGAAGACTAGGGGCAAATGGAACTTGCAGAGAATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039665:ENSDART00000057981:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(49.0=100)
A:
NA
C2:
PF0002812=Cadherin=PD(15.3=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATACGACCCTGACAACTGG
R:
GCAAGTTCCATTTGCCCCTAGT
Band lengths:
343-823
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]