DreINT0136711 @ danRer10
Intron Retention
Gene
ENSDARG00000095981 | si:ch211-161n3.5
Description
si:ch211-161n3.5 [Source:ZFIN;Acc:ZDB-GENE-110913-81]
Coordinates
chr4:10930470-10931250:-
Coord C1 exon
chr4:10930933-10931250
Coord A exon
chr4:10930773-10930932
Coord C2 exon
chr4:10930470-10930772
Length
160 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
ATTGTATGCCATCCGTTTAGAAT
3' ss Score
4.99
Exon sequences
Seq C1 exon
GCCGCGGGTCCATCAGGCTGGTGGGTTCTGGGGGAGACTGTGCAGGGAGGCTGGAGGTTTTTCACAACGGCTCATGGGGGACAGTGTGTGACGACTCCTGGGATATTAAAGATGCCCATGTAGTGTGCAGACAGCTGCAGTGTGGAGTGGCCCTCAGTAACCAGCAGGTACCAGCCTGGTTTGGTCCTGGTTCTGGACATATTTGGCTGGATGAGGTGGAGTGTGAGGGGAATGAGACGTCCCTGTGGAGCTGCTCTTCTCCAGGCTGGGGAAAACATGACTGTCTACACGAGGAGGATGTAGGAGTCATCTGCTCTG
Seq A exon
GTAAAGATTTACTTATGATAATTACTGTAGCTTCTACTACAGTATAGTTAAATAGTTTTTTAAATATTTGGAATATTGTATTGTATTGTTAAATAATAATTTACTATTTAAAAAAAAAAAAAAAAACATTACTGAATTTAATTGTATGCCATCCGTTTAG
Seq C2 exon
AATTTACAGAGATCAGGTTAACTGACGGCTGTGAAGGGAATGTGGAGGTTTTCTACAATGGATCCTGGGGAAATGTGTGCTTAAATCAGATGGACAGAGACACAGCGAGTCTGATCTGTCAGGAGCTGAACTGTGGAAGATCTGGCAGTGAACCCAGTCATTCAGTGAGCCTGAGATCTGCTCCTAAATGGTTGGATCATCTTAAATGCAGAAAACATGACAAAACATTGTATCATTGTCCATCTTTACCCTGGGGTAAGAACCACTGCTATATAGATGAGGTGGCCAAAATCACTTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000095981:ENSDART00000150247:5
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=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=93.1)
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:
TGGATGAGGTGGAGTGTGAGG
R:
TCCACAGTTCAGCTCCTGACA
Band lengths:
248-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]