DreINT0140918 @ danRer10
Intron Retention
Gene
ENSDARG00000102363 | si:ch73-138e16.4
Description
si:ch73-138e16.4 [Source:ZFIN;Acc:ZDB-GENE-070705-203]
Coordinates
chr22:1274753-1275520:+
Coord C1 exon
chr22:1274753-1274849
Coord A exon
chr22:1274850-1275410
Coord C2 exon
chr22:1275411-1275520
Length
561 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AACTGGAATATTCCCGTCAGTCT
3' ss Score
1.12
Exon sequences
Seq C1 exon
AGTATGAGGTGGAGAGTAAATCCATCGGAGCGCTGCTGAATGACAAACATTTCCGTTTAATATCACTAATTTCACGGGTGATTTGAGTCTCTTCAAG
Seq A exon
GTAAGTGTTTTATTTCTGACATTTCTAACATTCGCCAGTGTGATGTGCTGCTGATTATCTCGCAGTTTGGTCTGCTTTAGCTCATGTAGTTAATGCTAATATATTTAGCTTCAGGTAAATATTTGACATTTAAGTCATCCTTAGTTGCTTATACCAATGCTATCTCTGTACTAGGTCTGCAAGTTATTAGAAAAACATGACTTGAATTGTTTCTCTGCGATATGAACAACTAAATATTGCACATATATAGCGCAGAATATATCCAGACAGATCACAGCAGATGTAATATGTGTCAGATAAAGCTGGCTAATGTTCATTCATTGTATATAACATAGTAATCAATTTTGAGTTGTGGTGACAAATAAACAAGTCTCTCGTATTTTAACTTACCGAACCCCCTGTGGCGAGTTTTAGACTTAACCAGCAGTTTACAAATGAGACTACTATTAACAGTAAGTGCTTTATACAACAATATTGTGATGTATCGTCCGTAAAAGCAACTTCCCCCATGTTTGTGACATAATCAAAATATAATAGTCATAACTGGAATATTCCCGTCAG
Seq C2 exon
TCTACAAGTGAAGACGACCATCAGGAAGAAGTGAAATCTGAAAGACGAGATGAAGATGAGTGATCCAGAACCCTGCAGAATTAAAGAGGAGGAGGATGAGGAGCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102363:ENSDART00000159296:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTATGAGGTGGAGAGTAAATCCA
R:
CTGTCTGCTCCTCATCCTCCT
Band lengths:
207-768
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]