RnoINT0125465 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21626852-21628654:-
Coord C1 exon
chr3:21628506-21628654
Coord A exon
chr3:21627223-21628505
Coord C2 exon
chr3:21626852-21627222
Length
1283 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TCACTATCATTTTCTCTCAGGGA
3' ss Score
8.98
Exon sequences
Seq C1 exon
GAAATTCTGGACATACAACTTGGTATCAGTTCTCAAAATGATCAGTTGCTAAATGGAACTGCAGTGGAAAATGGTCATCCTGTCCAGCAGCACCAAAAGGACCCCGTAAAGCAGAAGAGACAGAGTTTAGGTGAAGACCATGTGATTCT
Seq A exon
GTGAGTGTTAGACAGACCCTTCATAATTAGAGGGCATAGGGGATAAATACTTGGAGAGGTAGATGTGCTGTTAGATTCATTGTTTTGCCTTTTTCTATTTAGGGGGAAACCTTGTATAATAAACTAATGATTTGATCAATCTGTGTTTTTAGGGAAATTTGAACTAGTAAAGCAGTTTAATTTAAAGCCAAAACCTAATTTGGGGATGAAAGTTCTGTTCTCTCTAACATCACGGTATATAGTTCTTCAATTTGACCAAACCTGAAGCTCTTAGGATAAGAGATTCAGTCCTAGATTATTTCAACTCTGGGAAAGCACAAGCAGCATCTGCTATTCACATTTTCTAGGCTGTCAATGGAGTCCATATCAGGACAAAAAAAAAAAAAAAAAAAAAAAAACCCACAAGGGGCTGGAGAGGTGGCTCAGCAGTTAGGAGCACTTGTTTCTTGTAGAGGACCCAAGGATTGGTTCCCAGCACCCACATGGTAGCTCATGATCATCCATGAATGACTCTCTTGTTTCAGGGCATTCAGCCCCCTCCTGCAACCTCCACGGGCGTTGGGCATTGTACATATGTGGTGCACATATATACATGAATGCAAAGCACTATATACATAAAATGAATCTTATTTTAAAAACTAAAGCATACAAAAAAACCTGTGTTAAATGTTCCTTGTTTTAAAAATCATGATGTTCTTGACTATTACTTTTGCCAAAGATTTGGCCCTGATCTTGAAATACTGATTAGATGACACATAAATTATCAAGTGTAATTTTTAGCATAAATTTGGAGAATATGATCTACTTTTAAAATTATTTAATTTTTATTTATTAATGTTTATGTGTATGGGTGTTTTGACTACTGCATATATGTCTATGCACCATGTGCAAGCCTTGTGGCCAGAAAGGCCAGGGAGGGCATTGCTTCCCCTGAGATTGGAGTTATTGACAGTTGTGAACTGCTGCATAATATTAGGAATTGAACCACAGGTCCTCTGGAAGAAAAGCAGTTGCGCTTTTAACTCCTGAGCCATCTCTTTAGCCCCTATTTAATACATTTTTTAACAAAGAAGATAGGCTTGGGATTGGGGATTTAGCTCAGTGGTAGAGCACTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCTCAGCTCCGGAAAAAAAAAAAAAGAAGATAGGCTTTTTCTGTGGGGTTAGAGTTTGAAATAGCTTTCAGAGAACAAATATGATAGCTCTTAAATTGTACTCATAGTTAATTTGTTTTCACTATCATTTTCTCTCAG
Seq C2 exon
GGAGGAGCAAAAACCAATTCTGCCAGTAACATCTTGCTTTAGCCAGCCACGCCCAGTGTCTATTAGCAGTGCAAGCTGCCTCCCTATCACCACATCTGTCAGTGTTGGCAACCTCATTCTGAAAACTCACGTTATGTCTGAAGAGAAAAACGACTTTTTAAAACCTATTGCAAATGGGAAGATGGTTAACAGCTGAAAGGAGGCTCATCTTTCAAATCTGTGACCACATCATGGAAGCATTTACACTAGCTTTTTATATATATAATATATATTATATAATGTATATTTTTTTTAAAAAAAAGATATTACTGGGGGCATCCATTTCCTGTGGACTCTTTGATACTTCAAGCCCTCTTGCATTAGCATTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.610 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGTTTAGGTGAAGACCATGTG
R:
AGGAAATGGATGCCCCCAGTA
Band lengths:
357-1640
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]