RnoINT0105242 @ rn6
Intron Retention
Gene
ENSRNOG00000046365 | Oit3
Description
oncoprotein induced transcript 3 [Source:RGD Symbol;Acc:735082]
Coordinates
chr20:29009330-29011511:-
Coord C1 exon
chr20:29011412-29011511
Coord A exon
chr20:29010047-29011411
Coord C2 exon
chr20:29009330-29010046
Length
1365 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TACTGTCCTTTCCCCCTCAGGAG
3' ss Score
10.08
Exon sequences
Seq C1 exon
CTGTGTTTCCGATGACTCGGTAAAGCAATACTCATCCAGGGACCACCTAGCAAAGCACTTCCAAGTCCCCGTCTTCAAGTTTGTGGGCAAAGACCACAAG
Seq A exon
GTAAGTGGGACACCTTTGTCTCACAACCCCATGCCTGAGCCTTCCTTCTCATTGTCCTGGTCCATTGACATTTTAAGAGTCTGTGGTTAGCTTCTGAACGACCTCTGGGAGAATATAGTTAAACTAGCATTGAGAAAGTCGGGGTTCACACACATTACAATTGCCTGCCCCATGCCACCCCCACATAAAGTGGCCGTGCACAGAGAATATCACAGGACCACAATTTGGGATCTTTGTGGGCAGACTAGCGTGAAAAGCCAGTGTTGCTGTCAGTTCAGAATTTAGACAGGAATCTTGTGGACAGACAGCACAGGAATGGGGAGAGGGTAGAACCCAGAATGCTAATCATAGGACACAACTTTGTAGCATGGAATGTTCTATATGGAATGTATGGGAAACTACAAATTACAAGGCTTTCAAAGCCATAGGAAGTGAACAATAATGGTAAAATTTATATACATATTTGTACACACACACACACACATATATATACATACACACATACACACACACATATATATATACACACACATATATATACATACATACACACATACACACATATACACACACACATATATATATACACACACATATATATACATACATACACACATACACACATATACACACACACATATATATATACATACACACATACACACATATATATACATACACACATATATATATACATACACACATATACATACACACATACACATACACACACATATATACATACACATACATACACATACATACACACATATATACATACACACACATACACACACACACACATGTTACCGCCAGTGTGCATAATCATTAACTCGGCACATGATCTTTGTCTAACTACATGTCTGTCGGTCTCACAGAAACAGAACAGTTTGCTGGATATGTTTTATACCATGCTCATAAGAAGGCAGAGGGAGGCCTCAAATAAATACAACCAAGGGGGCCACACTATGTCAATTTAATGGAACAGTAAGCAGTTTTTAGGATTGTGAACATGAGAAAAGCAGGTGTGAAGAAGTGTCCTAACAGCGTGTGTGCACATGGGTCGGGATGGCAAGAGGCTATCCCAAGAGGCCGTGGGCGACAAGATTGAGCTTTTGCTGCTGTTGGCAGTGCTGAAACCCAGCCCAAGGAAAGCTGCACAGAGCGCGTTCTCTCCCACAATGCTCTAAGGGACCTTTCCAGCCACTAATGTGTGGACTGAGCAATTTTCTTATCCTAAGTCTCAGCTTCCTGTCCATAAATACAAAATGGTCCCTGTCGCCTCTGGTTGGTACTGTGGGTGGCTCTCTGCTGTCGCCTACAGTGACAGTGGACGCTGCTGTTTTACTGTCCTTTCCCCCTCAG
Seq C2 exon
GAGGTCTTTCTACACTGCCGGGTCCTTGTGTGTGGGGTGCTGGATGAACGCTCCCGCTGTGCCCAGGGGTGCCACCGGCGAGTGCGTCGAGAGGCTGGTGAAGACGAGGACTCTGCTGGGCTGCAGAGCCAGACACTGACAGGCGGCCCCATCAGCATCGACTGGGAGGAGTAGTTCCTGCTCCCTGGCTTCCAGCTGACCTCTCAAGAACGACTTCCTGTGTCCTTGGGGAGCATCAGAGAACCTCCTGAGATTCCACGATGGCTTCTTTAAATCCTGTACTGTGAGTTTAGACAAGCCCGCTCCACGACAGGACTGGCTGGCTTTGTGCCTGTGTTGGTCCAAATCGCAGCACTGCTGGCCCATGTGGCCTAGGTGGGCCTCAGCTTCTGGATTCAAAGAATTGTATCTGTCCTCATGGGAGGGCATCGCCTTCACTTCCTCCGTTCCTTTCTTACAATGAAATACCTCGTTTATGATGTAACAGGACCTCTAACATGAGAGTTGGGATGGCATTCCAAGTCAAAAACCTAAAATAATTAATTACTAAAATATAACCCATGGCTTCCTAAGCATCTAATAATTGTGACCTAACTCCAACCCCAATATAGACTATTTAAAGGAGAGTTGAAAGTTTATCAATAAAAATAATGTGTAAGAGAAAACACAATAGGTTAACGTCTCATAGTAATTCTGAGTGCTTTCATATTGCCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046365:ENSRNOT00000075682:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(13.3=100)
A:
NA
C2:
PF0010018=Zona_pellucida=PD(10.4=44.8)
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:
TCCAAGTCCCCGTCTTCAAGT
R:
GGAGCGGGCTTGTCTAAACTC
Band lengths:
347-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]