RnoINT0105239 @ rn6
Intron Retention
Gene
ENSRNOG00000046365 | Oit3
Description
oncoprotein induced transcript 3 [Source:RGD Symbol;Acc:735082]
Coordinates
chr20:29013907-29015935:-
Coord C1 exon
chr20:29015775-29015935
Coord A exon
chr20:29014243-29015774
Coord C2 exon
chr20:29013907-29014242
Length
1532 bp
Sequences
Splice sites
5' ss Seq
GACGTAGGT
5' ss Score
6.78
3' ss Seq
TTCACCCTCTACCGGCACAGGTG
3' ss Score
7.53
Exon sequences
Seq C1 exon
TCCCTGTGTTGTGCAAGTCCAGCGCCATTGAAGTGAGTGTCCCCCGGGAGCTGGTTGGAGGCCTGGAGCTCTTCCTGACCAACACCTCCTGTCGAGGAGTGTCCAATGGCACACACGTCAACATCATCTTCTCCCTCAAGACCTGCGGCACCGTGGTTGAC
Seq A exon
GTAGGTTCCCCTAGAGGATGCTTAGGTAGTGACCAAAGCTACTTGGGGAGGTAGCTGACAGAGGGTGAGATAGGTCCACACAAAAGAACTGAGCTCAAGACATCTGCTGCCCCGAGCCATGGTCCTGGAACGGTGAGGTATGGAATGACTAATTCTGCCATCCCTGTTCGTGCACAGCCCTGAGACATCCGTATGCAAGGTATTTTCCCACATCAATCCCAACAGTAGCAAGAGGCCGGATGCACCCTGTAGTCAGCTATTTGGAGGCTAAGATGATATGGGATAGGGGACCAGCGGTTCATTTATGACAGGTGAATGAGTCCAGACATTGATCCGGGCTGAGGTAAAAGGTTAATATTTTTCTTTTCCAATCATGCTCACCCCCCCCCCCACGCTGAAAATCCGAAGGGAATATGGAATGAGTGTCTGTCTGTTAGGAAGCACACAGCGGTCCTGAGATGACAGGATATAAAATGTAAACAAGGGCTGGGATGACTGACACATGACATACACGGACTCTAGGAGTCCCTGAAAGGGCTGTGGCTTGGACATGGGTAGAACTGTGTGTGATACACACAAGGAAAGAGGCAAAGGGCCTTGGTGATGGGGAACACAGGAGCCCCACCTCAGGGGACTCTTCAGGTCGGTGCTAAGGTGAACGGGCAGAGCAACGTGCACTGCAAGGAAGCCTCAGCAGAAAATGAAGCTGGAAAGGACACGGGGTAGAGATTGTTTCCAAGGCCTGGCTTGGGTGCTTGGGAGGGAGCAGGTTTGAGTCCCCCAAAATTGAATGAAGTTCTGACCTCACAACATACAAGATGGATATACACAGATACAGGATAGAGGTCAGGGCAGAGGTCTTAGTGATCATTTGTTTATGAGTCCTGATAAATGAATCGCAGGGGTTGATTACTTTGGGTACGATACAAGGTAGCTATGGAGGAATAGGGGTTCCCCATTCAGGCGAGCCGTGTGGATTGTTTCTATGGAGAGCCTGAGAGAATAGCCCCATAATTGCCTGGTACTACTTCCTGTTGGTTGAATAGAAACACTTCTGGGGTAAAGAGCTGAAATCCCTCCATATTGGTATGGGTGCAGGTTCGGGATGAATCCAGGGCTAGCTTCGGTGCAACAGGATCTAGGATTCTTGCCAGAGAACATGTGGCACTGTCCTCTTGTGAGCTTGGGGATCACTGATGATCTCCCTAGATCAGCTCTCCTGACTAATGCACCAGAAGGACGCCTGGGTTGACCAAGAAGTAGCGGGTCGGCTGGCTTAGCAGTCTGCATGTCCTACTAACCAACAAAGAGGAAGGGCTCAGGCAGATTTGCTTGAGGCCAGTTCAGGCCAGTCCGGGCAACATAAACAGCCCCCTCTCAAAACGCACACACTCAGAGCTAAAGCCCCTCTGGTTTAAGGAACTAAATCTGTAACATTTGACGGACTGGGTGTTTGGAGGATGTCAAGGGGAGGACAGGGGTAATAACTAGAAACAAACCTCACAATCTCCCTTCACCCTCTACCGGCACAG
Seq C2 exon
GTGGTGAATGACAAAATCGTGGCTAGCAACCTCGTGACCGGTCTGCCTAAGCAGACCCCTGGGAGCAGCGGGGACATCATCATTCGGACCAGCAAACTGCTGATCCCGGTGACCTGCGAGTTCCCACGCCTGTACACCATCTCAGAAGGGTACGTGCCCAACCTGCGCAACGCCCCACTGGAAATCAGGAGCCGGAACCACGGCATCTTCCCCTTCACACTGGAGATCTTCAAGGACCACGAGTTCGAGGAACCGTACCGGGAGACTCTGCCCACGCTCAAGCTTCGAGACTCACTCTACTTTGGCATCGAGCCCCTGGTTCATGTGAGCGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046365:ENSRNOT00000075682:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=PU(20.1=92.6)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(44.6=100)
Main Inclusion 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:
CATTGAAGTGAGTGTCCCCCG
R:
CAGTGTGAAGGGGAAGATGCC
Band lengths:
358-1890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]