DreINT0136702 @ danRer10
Intron Retention
Gene
ENSDARG00000045752 | si:ch211-161n3.4
Description
si:ch211-161n3.4 [Source:ZFIN;Acc:ZDB-GENE-110913-46]
Coordinates
chr4:10954915-10955617:-
Coord C1 exon
chr4:10955315-10955617
Coord A exon
chr4:10955230-10955314
Coord C2 exon
chr4:10954915-10955229
Length
85 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTTTTATTAAATTCATTTAGATG
3' ss Score
6.85
Exon sequences
Seq C1 exon
AGGTCAGGCTGGTTGGAGGTTCTCGCTGCTCTGGGAGGTTAGAGATTCTTCATAATCAGACGTGGATGTCAGTGTGTGATGCTGCCTTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGTACAGGTGCTGAGAGCTGCTGCTTTTGACAAAGGAGACGCTCAGATGTGGACACAAGAGATTCACTGCAGAGGAGACGAGTCTCAGATTCACCTCTGTCCAACATCAACATTATATGAAAACAACTGTACTCACAACAACAGTGTTAGACTGATTTGTGCGG
Seq A exon
GTAAGAGCTGGAGTTAGAGAGAAGATATTAGAAATATGTATTATATTATTTTACTTGAAATGTCTTTTTTATTAAATTCATTTAG
Seq C2 exon
ATGCAAGGAATGTGAGGTTGGTTGATGGTAACAGTCGCTGTGCTGGTAGAGTGGAGGTTTATCATAGAGGTCAGTGGGGAACAGTGTGTGAAGATGACTGGGATTTGGCTGATGCTGCAGTGGTGTGTAGAGAACTGGACTGTGGAGAACCTGTAGATGCTCTGGGTGATGCTCACTTTGGACCAGGATCAGGACCAATCTGGATGAGTACTTTAAGTTGTTATGGGATGGAATCTACATTAAAAAGCTGTGGAGCGGCAGGATGGGGCCAACACACCTGTGGTCATAATGATGATGCTGGAGTCATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045752:ENSDART00000150478:7
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:
PF0053013=SRCR=WD(100=96.1)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5),PF0053013=SRCR=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGAGACGCTCAGATGTGGA
R:
CAGCACAGCGACTGTTACCAT
Band lengths:
177-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]