RnoINT0134660 @ rn6
Intron Retention
Gene
ENSRNOG00000011752 | Sh3d19
Description
SH3 domain containing 19 [Source:RGD Symbol;Acc:1304885]
Coordinates
chr2:185422689-185423336:+
Coord C1 exon
chr2:185422689-185422891
Coord A exon
chr2:185422892-185423283
Coord C2 exon
chr2:185423284-185423336
Length
392 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CCCCTTTTTTTTTAATGCAGGCA
3' ss Score
8.99
Exon sequences
Seq C1 exon
AGGCCAGAGGTGCATCGCTCGGTTTGAGTATATCGGAGACCAGAAGGATGAGTTAAGTTTCTCAGAAGGAGAAGTAATCGTTCTTACAGGGTATGTGAATGAGGAATGGGGCAGAGGAGAGATTCGAGATCGAACTGGGATCTTCCCCCTTAACTTTGTGGAACTTGTCGAGGATCACCCCATGTCTGGTGCGAATATTTTAA
Seq A exon
GTGAGTATGGGGGACGTGGGTATCTGTTGTGTCTTTGCCTACCTCAGGTGAACCAGTAATATAATAACACTTAAGACGTTTAATGATCATCCCACCACATTTGTCGCGGTGAGGAAAACACTTACTTTGAATGGTGATTTGTGTGGGTCACTAGTTTGATCTTTTGTTTAGGTGATTGGCAATGGCCACACATGAGAAATGACAAAGACTGGCAAGGAGTGCATTATACGGCTAATTTTGAACCCTGGTTTAAAGTTAAATAAAGTCCCCAGGAGGCTAACACTTAAAGAGACTGGAACCCCAGTGTCTACTGTCACCCTACCTATTTTTCCTGTAATACTATGTGATTTGTTTGTTTGTTTAATCTGACCCCCCCTTTTTTTTTAATGCAG
Seq C2 exon
GCACAAAGGTGCCACCAAAGACCAAAAATGAAGACCCTGGCTCAAATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011752:ENSRNOT00000015802:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF146041=SH3_9=WD(100=71.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGAGGTGCATCGCTC
R:
CTGAGAATTTGAGCCAGGGTCT
Band lengths:
254-646
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]