RnoINT0154098 @ rn6
Intron Retention
Gene
ENSRNOG00000002468 | Tnr
Description
tenascin R [Source:RGD Symbol;Acc:3886]
Coordinates
chr13:77637128-77638707:+
Coord C1 exon
chr13:77637128-77637217
Coord A exon
chr13:77637218-77638443
Coord C2 exon
chr13:77638444-77638707
Length
1226 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AAACTTATTTTAATCCACAGAGC
3' ss Score
7.77
Exon sequences
Seq C1 exon
ATCTGGTTCCAGGCACAGAATATGGAGTTGGAATATCTGCGGTAATGAACTCGAAACAAAGCATTCCCGCTACCATGAATGCCAGGACTG
Seq A exon
GTAAGTAGGAGAATGGTGAAGAGGATGACTAGGCTATAAGCATGTAAGACTCGGGTGTGTGAAGGCTTGTACTGTCAGGATCACCATGGGGTACCCCTCCCAGTAAACAAGGTCCCGTTGATAAATATCACCTAGTGACAGCATCTATCCTATGCCTGACCTAACATCTGAAGTCACATCCTATTTACCACAGATCCACAATCCTGTGTTTGATCCACAATCAGAAGGCCTTCAGAGTAGATGTGAAAACTCCCCAATAGACTGATGCTGTAGCAGATTGTATTTCTATCTATTTGATAGCAGGCAGAGTGTGCATCCTCAGTCTGCAACACAGGAGCACCTAAAAAGGTCATTGGAAGACAAGCCTAGACTTGGAAACATTCTATACAACTCCAGAAGAGCATTAAAAAAAATCTACGTAAGATTCTTACTGCTTTGAATCCAACAGTTTCCCTTCCAATTCTTTCAGAAATTTCAAAGTCACGTCAGTAAGCTTAGATATAAGCATCTCGAACTGAGCGGGGTGGGGTTTGGATCAATTCCTGTCTCCAAGGTTCAGCCTGGCATAAGCAAACTTGCTAGAGGATTACACTAACAAAAGAGTCTCCATTAGTCCTCAGACCTATCCACCTGAGGTTAGGACAAACCAAAGAAACCTCCAAGTGGGGGTGGTGGTGAGGGGGTTGCCATGAACACCTTTTCCTGTCTGGTAGTAGTTCCTCTTTCCCTGTTTGACTTACCAAGCGAGGAGGAATGAAAACAAGTGTAGAGCTCTAGCAAATCAGCATCTAGATCTATCCCAGTGGGGGATGTATCCAGTGTCACTGCTAATAACGCCTTTCTGCAGATTGTCCATCTGTTTACCACATCGCTGGCCATCTTTCAAAGGGAAGCTGTTAAACAAAATGGGAGAAAAGTATCAACCATGACAAGCTAGGGCTCACGCTCATTAGGTCTACTTGACAGCCTGGAGACACACAGGGTAGTCCAATAACTAATAACTGTCCTATGGAGCCAGTGTGAAATAGGCCAGTTGCCAAGTGAGGTGGTACATGCCTGTAATCTTACACTTGGGATGTAGAGGAAAAGGATCAAAGTGCGAGGTCAACCTCTGATGGATAATGAGTTCAAGATCTGTCTAATCTAAATAAGACCTCGATTGATTGATTGATTGATTGATTGATTGAATGAATGAATGAATAAAATAAACTTATTTTAATCCACAG
Seq C2 exon
AGCTTGACAGTCCCCGAGACCTCATGGTAACAGCCTCCTCAGAGACCTCTATCTCTCTCATCTGGACGAAGGCCAGTGGTCCTATTGATCACTATCGAATTACTTTTACTCCATCTTCTGGGATCTCCTCAGAAGTCACTGTGCCTAGGGATAGGACTTCATATACACTGACAGATCTAGAGCCTGGAGCAGAATACATCATCTCCATTACTGCTGAGAGGGGTCGGCAGCAGAGCCTGGAGTCTACTGTGGATGCCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002468:ENSRNOT00000003407:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.419 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.5=71.0)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGGTTCCAGGCACAGAAT
R:
CCACAGTAGACTCCAGGCTCT
Band lengths:
342-1568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]