DreINT0144177 @ danRer10
Intron Retention
Gene
ENSDARG00000094603 | si:dkey-21h14.12
Description
si:dkey-21h14.12 [Source:ZFIN;Acc:ZDB-GENE-110913-1]
Coordinates
chr4:11085360-11086333:-
Coord C1 exon
chr4:11086016-11086333
Coord A exon
chr4:11085893-11086015
Coord C2 exon
chr4:11085360-11085892
Length
123 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAAC
5' ss Score
1.51
3' ss Seq
ATTAATGTGTTTACATGTAGAGT
3' ss Score
5.42
Exon sequences
Seq C1 exon
GCCGCGGGTCCATCAGGCTGGTGGGTTCTGGGGGTGACTGTGCAGGGAGGCTGGAGGTTTTTCACAGCGGCTCATGGGGGACAGTGTGTGACGACTCCTGGGATATTAAAGATGCCCATGTGGTGTGCAGACAGCTGCAGTGTGGAGTGGCCCTCAGTAACCAGCAGGTACCAGCCTGGTTTGGTCCTGGTTCTGGACCCATATGGCTGGATGAGGTGGAGTGTGAGGGGAATGAGACGTCCCTGTGGAGCTGCTCTTCTCCAGGCTGGGAAAAACATGACTGTCTACACAAAGAGGATGTAGGAGTCGTCTGCTCTG
Seq A exon
GTGAACAATGCTGCTGTATTTTTTCAGTAAAATTTATTAAATATATTAATATAGTAATGGGTGCATAGTTGCTAGATTTGGTATTTTAAAATGACCCTTTTTCATTAATGTGTTTACATGTAG
Seq C2 exon
AGTTTAAAGAGATCAGATTAACTGAGGGCTGTGAAGGGAATGTGGAGGTTTTCTACAATGGATCCTGGGGAAATGTGTGCTGGAATCAGATGGACAGAGACACAGTGAGTCTGATCTGTCAAGAGCTGAACTGTGGAAGATCTGGAGTTTTGTCTGATTCTACATCAAGACTGAAATCTGCTCCTAACTGGCTTGATAAAGTTAAATGTCGACCACATGACTCTACTTTATGGCATTGTCCATCTACACCCTGGGGACAAAACTACTGTAATGAAGATGAAGTGGCCAATGTTACTTGCTCAGGTTTGATGGTATTTAATTGATTTATTATTTTCTGATTATCAGACATATTCCCTTATCCCCTTAACTGTTATCAGTGAGGTGTTTTTTTAGAAACTATTTATCAGTCTTTACATTGTTATTTTTATATTGAAACCATTAAAAGTAATGTAATCACCAACTCCACACTTATTGCTCATAGGAGAATCCACTTTTGTGAAAATCCCACCAACCACCCTCAATTAAAGCCTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000094603:ENSDART00000135511:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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=88.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGATGCCCATGTGGTGTGC
R:
CACATTCCCTTCACAGCCCTC
Band lengths:
255-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]