RnoINT0134666 @ rn6
Intron Retention
Gene
ENSRNOG00000011752 | Sh3d19
Description
SH3 domain containing 19 [Source:RGD Symbol;Acc:1304885]
Coordinates
chr2:185410579-185411914:+
Coord C1 exon
chr2:185410579-185410640
Coord A exon
chr2:185410641-185411649
Coord C2 exon
chr2:185411650-185411914
Length
1009 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
GGCTCCCTCTTGCCTTTCAGACC
3' ss Score
9.9
Exon sequences
Seq C1 exon
GACCTGGAGCAAGCCAGTGAATCAGGAAGCTTGGTACAAGGACCCCCCAGGTTGCCACCAAG
Seq A exon
GTAGGTAAAATGTGGGAAAGTTGGAGGGACTGAATACTGTGGAGGACTGGCTCCTGTCCACTACCTTCTATATGCAGGGTTGTGAGCCTTAGATCTCGCCTTGGAGAGAAACTCAAGATTCTGCCCGGGCTGCCAGCCCACAGTCTGCTTGTGACAGCAGGTTATGGGACTCTCTGATCTTTTCTTCTTTTAACAAGATCCAAAGCCTACAGATCACAAACATGAGTGAGTCTTTGATACTTTTTCCAAATAAATAAGACAACTTTCCAAACTAAAACAGTTCTTCTTGTGGAGTCTTGCTCATAAACTCCCTCCTGTTAGGAAAGGTAGGCCTGTTTCTCAGCGTCTCAGAAGGGAACTCAGCTGGCCTATCCCCAGAGCTCTAGAGGCATTTGAACAAATGTCGAAGGCATTGCCATGTCGAAGTTTATTTCCACTTAGAGATAAGGAAAAAGGTTTTCAAACTAGTAACTATCCTATTCCCTTTTTAGGACTTTATGCTCTTCTAAATTAAGAGCTTTAATAGTAATGTATAATGTGGCCCATTAGGGGATTTTGATGTTCCTTTTCTAATTATGCAAATGACCCAAGCACATACACCTGATATCGTCTCCTGTCTACGCTTTTGTCTCAGACAGTGGCAGACAGTACTTAGCTTCCTGAAATAGTCAGTGGGTTCAGGAGCAGTTGGGGCCTGAGAGCGCTCATGACTGTAAATGCCTGTTTGTCTTGAGCAAATGAATCTCCAGTGCTAGCTAAGAGGAAGCCAGAGCATCGGACTATTTCCTCTGATACAATGTTTAATGCAACGGTCATTTGCTCAAAAGTAGCACACCCTGCAGGTTTCAGTAAACTGTATCTCCCCTAGCAGAAAAGCTCTTCATGCCTGCGACAGGCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAACAGAACCTAGATGAGAACAAAATGCTGACTCGTGGCTCCCTCTTGCCTTTCAG
Seq C2 exon
ACCTGTGCATGGAAAAGTCATTCCAGTTTGGAGGCCTCCCCCCAAAGGGGCCCCTGAGAGACCCCCACCCCCTAAACTTTCTGCAACCAAATCATCAAATAAGAATCTGCCTTTTAACCGCTCCTCCTCCGACATGGATCTTCAGAGAAAGCCGTGTCACTTGGCATCTGGACTCTCAAAAGCCAAGAGTCAGGTCTTTAAAAACCAAGATCCGGTGCTACCCCCTCGTCCCAAACCAGGACACCCTCTCTACAGGAAATACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011752:ENSRNOT00000015802:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
TGGAGCAAGCCAGTGAATCAG
R:
ATTTCCTGTAGAGAGGGTGTCC
Band lengths:
318-1327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]