RnoINT0134567 @ rn6
Intron Retention
Gene
ENSRNOG00000054560 | Sh2d3c
Description
SH2 domain containing 3C [Source:RGD Symbol;Acc:1307287]
Coordinates
chr3:11785127-11787865:+
Coord C1 exon
chr3:11785127-11785251
Coord A exon
chr3:11785252-11787552
Coord C2 exon
chr3:11787553-11787865
Length
2301 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
TCTCTCTCTCCCCTCCATAGTAA
3' ss Score
9.63
Exon sequences
Seq C1 exon
CACCTCACTACCCCATCCTCGAGACTCCATCCGAAACTGCGCCCTCAGCATGGACCAGATCCCAGATCTACACTCTCCGCTGTCTCCTATCTCCGAGAGTCCCAGCTCCCCTGCCTATAGCACCG
Seq A exon
GTAAGCTAGCAGGGGACAATCTGTAATGTCTTTGTGGGGAACCCTTACCTGTCTGTCTTGCCTCTGTGCTGGGAGCAGTGTCCTCAGAAATGTACTAGAAAAGCCTGTGGTGGAGTCGCTGGTGTTGGCACACAAGCAGCGTCAGGTTGATAGCGTTCCCACAGGTGCCAGGCAATGGACACAAAATGGGTTCTCAGTGTGAACGGCAGGATAAGTCTGCTGGGGGTGCAGCATGTCATGGGATCAGGCCCTGAGGCTGTGATGTGCACCGTGCTTGGCCCCAGCAGACAAAGTTCCCACTACAGCTGCCTCACCAAGGACCCTGGTAACAAGTGCATCCCTAGTGAGCTTAGACCAGGCTAGCTCAGGCTAATGTGCTTTGCTGCTCTTTTTATTTTATTTTTTTAAGATTGATTGATTTATTTTATATATGAGTACACTGTAGCTGTCTCCAGACATACCAGAAGAGGGCGTCGGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCATCTTTTTTTTAATTACCTTTTAGAGCAGTTTAAGGTTTATAACAAAATTGAAATCACAGCGCCCTGTGCTTATAAATACAAATAAAGTAAAAATATGTCCCCAGTTTATTTCTCAAAACAAAGCAAAACAAACCCCAACTGTTAAGCAACATTTCTTGCCCCACAAGGCAGTAGGAGCATTGAGAGAGGTGGTCTCCTGGAAGTCTGGGCCTGCGGGGAGCATTCCGTGCCTCTAGAGTGTTACTGTGTGTCCTCAGGAGTCCTCCCTGAGGACCAGCCTTGCTGTCACATTCACTTGCTTTCAAACCAGCATGTCCACGTGAAGACTTTTGATTACCTATTGTGTTTTTGAGACAGAGACTCACTATGTAGCCTTGGCTGGCCTGGCACTCACTAAGTAGCCGCCTCTGCCTTCTGAGGGCTGGAATTAAACGTGTCCACCACCACACCCAGCTCATGGGCTGCTTTTTAAGTTTTTAATGGGACAGTCTCCAGCAGTGAGGTGTCTGTCAGAGCTAGGAGATGAAAGCTTTAGTCCCAGCCCTACCAAGTTGAGTGACCTGGGCAAGTCTTCTAAGCTCTGAGCCGTCATTTTCTCAGCTCAAGCCTGAGGACATGAAAGTCCTTACTGCCATAGAACGGGACATTTGGGGTATTGCTTGTTTGCTTTCGAGAGAAGGTCTCACTATGTAGCTCTGGCTGACCCAGAACTTGTTATGTAGATCAGGCTAGCCTCGAATCTACAGAGACCTGGTCATCCCAGCCTCCTGAGCGCTAGGGTTACAGGTATCCACCACTGCACGCTCTTGGCTGTTTGGCTTCTGAGATCTTTTACATTCCTTTACTTATTTGTGTGTAGGGTCTGGGGGGACAGGAATGGATCACCGCACCAGTCTAGGGGTCAAATGACAACTTCCCCGAGTTCCACAGTGTGGGTTCCAGGGATCTAACCAAGGTTGTTAGACTTGGTGGCAAATGCCTTTATCCAGTGAGCCATCTAGCACTTCCCTCCCCTCCTGCCTTTGGAGACAGGGTCTAAGTACCTCAAGCTGGCTTGTAGCTCTCACTAGTCTCCACCTCAAGGCTATCCTTCTACCTCAGACTCCCTGTGCTGTGATTGCAGACGTGGGCCACCATGTCAGGCTCTTCTCATTGATGGCTTTGCTGTTGACAATAACTCTCCAGCGTGTCACCAGCTCTGGGCACGCCCCACCCACCGAGTGTATCATTACTGCTAATTCACTTGGTGACAGCTTCACCAGGCGCAATAGGCTTCAGCAGGGCTTAGCTTCCCTGGACCGCTGCTGTGGCTTCCTATGTTGTAGCCTCTTGGGGCAGGGGCTCTGCTGGTCCAGGGAAATGCTGAGTACCACAGAGCATCTCCCTCCACATTCTGGGATGTGGGGACATCACCCTGTACATCGGATGCAGACTGTTCTTTGAGGAAACAGGGACAATTGATTTTTAAAATCATTTAAAATTACTTATTTATCATGTACATAGCATCCTGCCTGCATGTATGCCTGTGGGCCAAAAGAGGGCACCAGATCTCATTACTGATGGTCATGAGCCACCAAGCGGTTGCTGGGAATTGAACTCAGAACCTCAGGAAGAGCAGTCAGTGCTCTTCACCACTGAGGTATCTCTTCATCCTGGGAGGCTCCATTTTAAAGGGTAGTTGAGATAACGAGTCGTCTCTCTCTCTCCCCTCCATAG
Seq C2 exon
TAACCCGCGTCCATGCTGCTTCTGCTGCCCCCTGTACAGCACAGCCCGCCTCCCCAGTTGCCCGCCGCTCCAGTGAACCTCAGCTATGTCCTGGAGGTGCTCCAAAGCCTCCTGGGGAGTCAGACAGGGGCCCTCACGCAAGCCCGTCCCACACCCTCTGCAAGGCCTCGCCATCACCGTCACTCAGCAGCTACAGTGACCCAGACTCTGGCCACTATTGTCAGCTCCAGCCTCCTGTGCGCTGTAGCCGAGAGCCGACAGCAGGAGAGACCCCCCGGAAGGCTCGGAGCTCTGCAGAGAGGCAAAAGGAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054560:ENSRNOT00000078366:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.977 A=NA C2=0.868
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061714=RasGEF=PU(10.1=9.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]