DreINT0136693 @ danRer10
Intron Retention
Gene
ENSDARG00000045752 | si:ch211-161n3.4
Description
si:ch211-161n3.4 [Source:ZFIN;Acc:ZDB-GENE-110913-46]
Coordinates
chr4:10952107-10952639:-
Coord C1 exon
chr4:10952568-10952639
Coord A exon
chr4:10952437-10952567
Coord C2 exon
chr4:10952107-10952436
Length
131 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CTGCTTTCTTTTTGTGTGAGATG
3' ss Score
1.88
Exon sequences
Seq C1 exon
AAAAGGAGAGTCCTGCATCCCCCAGAAGTTATCTTACTATTTCCACATCTCCTCACCAAAGACAATGTTTTG
Seq A exon
GTAAGTGTATTTCATAGAAACACAAATTAAGAGAGCTGTATACAGGGTAAGGTCATACAAGTAACCGTTATGACCCCTATATACAGTAGGTGTCTCTGTTGTGACAGTACTCTGCTTTCTTTTTGTGTGAG
Seq C2 exon
ATGTGTGTGTTTTAGCTCACGTTCCTCTCAGACTGCGTGGAGGGCACAACCAGTGCTCTGGGAGGCTGGAAGTATATCATAACGCTGTGTGGGGCTCAGTCTGTGATGATCTCTGGGACTTCAGTGATGCTCAGGTGGTCTGCAGGCAGCTGGGTTGTGGAGCAGCACTGAGGGCTGATGGGAATTCAGCCTTTGGTGCTGGTGAAGGTGTTGTGTGGCTGAACAGAGTCCAGTGCAGAGGGAATGAGCTTCACCTGTGGGACTGTCCTCTCTCCCTGAACAACCACACTGACTGCTCTCACAAAGAGCACGCTGGACTCACCTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045752:ENSDART00000150478:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=88.3),PF151021=TMEM154=PU(17.2=14.4)
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:
TCCTGCATCCCCCAGAAGTTA
R:
GCTGAATTCCCATCAGCCCTC
Band lengths:
252-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]