RnoINT0125454 @ rn6
Intron Retention
Gene
ENSRNOG00000002750 | Rc3h1
Description
ring finger and CCCH-type domains 1 [Source:RGD Symbol;Acc:1563512]
Coordinates
chr13:78770865-78771748:+
Coord C1 exon
chr13:78770865-78770977
Coord A exon
chr13:78770978-78771466
Coord C2 exon
chr13:78771467-78771748
Length
489 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
AACATCTGCTTTTCATACAGATT
3' ss Score
7.91
Exon sequences
Seq C1 exon
CCTCCACAGCATAGCAAATACAAAACATACATGTGTCGAGATATGAAGCAAAGGGGAGGATGCCCTCGTGGGGCCAGCTGTACGTTTGCACATTCGCAGGAAGAACTGGAAAA
Seq A exon
GTAAGTATGAAAACCATGAAACACAGTCTTTGGAATAAGGAATGATTTGTTAGCTTTAACAAATGGAGAGTTGACTCAGTGGTTAAGAGCATTGGCTGCTCTTCCACAAATCGGGTTCAACTCCCAACAACCGCATAGTGACTTACAACCATCTGAATTGGGATTTGATGCGCTCTTCTGGTGTGTCTGAAGACAGCAACAGTAACAGAGAACTCACATATATAAAATAAATCTTTTAAAAAAATATATAAAAAGAATAACTGAATTCAACACTTAGGAAATATTTATGAATTAGTACATTTCTTTAAAATTTTTCTTTTACTTTTCATTTTATTGTTCCTATAAATGGGAAGCTATATTTTCTCAACTAGATGTCAAAATGAGTCATTTCCACACACAAAACAATGTACTAGTACTTTTTAATAATTTTAACTGATTTTTACCAATTGTGTGGTGTATTTGTAGTTGAAACATCTGCTTTTCATACAG
Seq C2 exon
ATTTCGTAAAATGAACAAACGTCTGGTTCCCAGAAGACCTTTGAGTGCCTCTTTGGGTCAACTTAATGAGGTGGGCCTGCCTTCAGCGCCCATACTTCCCGATGAAAGCACAGTGGATTTGCCCAGCAGAAAACCTCCTGCACTCCCAAATGGAATTGTATCGGCAGGGAACACAGTGACACAGCTGATTCCTCGTGGGACAGACCCCGGCTTTGATTCCACTCTGAAACCAGTAAAGCTAGACCACCTGAGCAGCAGTGCTCCAGGGTCCCCTCCCGACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002750:ENSRNOT00000003689:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAAGCAAAGGGGAGGATGC
R:
GGACCCTGGAGCACTGCT
Band lengths:
342-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]