RnoINT0153595 @ rn6
Intron Retention
Gene
ENSRNOG00000058645 | Tnc
Description
tenascin C [Source:RGD Symbol;Acc:621057]
Coordinates
chr5:79795331-79796417:-
Coord C1 exon
chr5:79796266-79796417
Coord A exon
chr5:79795428-79796265
Coord C2 exon
chr5:79795331-79795427
Length
838 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
AAGTAGCCATGTTGTCGTAGGTT
3' ss Score
1.83
Exon sequences
Seq C1 exon
TTGGACTCCTATATCCATTCCCTAGGGATTGCTCTCAAGCAATGTTGAATGGCGACACCACCTCTGGCCTCTATACCATCTATATAAATGGTGACAAGACTCAAGCACTGGAAGTCTACTGTGATATGACCTCTGATGGAGGTGGATGGATC
Seq A exon
GTGAGTACCATTATAGATCATGACTGGTTTATAGAGCTCTGGGACAGGGGCTTTGATGAGGGGAAATGTGTACTCTCAAATACACATGCGTAAGGTAATCCTTGTCATGTAGAAGACTTTCACAATTGTCTATTTAAATAGAAAGTAGAAAGCAAGAACTGGAGACGTAGTTCAGTTAGTAGAGCACTTGCTTGAAATGTACAAGGTTTTGAGTTCACTCCCTAGCACTACAGAAAACCAAGAATAAAGCTGGTAAATGCCTACTTGAATTTGGAAGGTGGAGGCAGAAGGATCAGGAGTTCAAGGTGATTGTAAAATATCAGCTTTGAGCCATTCTGGGATAACAGAAAAAGAGGCAGAGGAGAAATTCTGTTATGAATGGCAGTGACAATCAAACCTACTAGTTATAATAGCCAGTACTGGCTGAGTAGTTACTCTTTATCAGACACATGTTAAGAATTTCAGGACTTATTTTAATCCCATGACCATATCAAATGTATAGGATAATTTTTTATCAATAAAATTTGTTTGTAGTTCATCCCCTCCCTCTCCCAAACTTTTCCTCCACTGTCAGCTTCAGTGTGATGCATTATGAAGAGTGATGAGAGGCTGACGTGCATCGATGTCACCAGAACTAAGAAGCATTATCCTTTCCTAGTTTTCAGAGCACCAAGATTTGGGGAGGGGAGGGGCATGATGTGCTCAACATCACAAGGCAAATAAATAAGCAATGGTGGATGCTGGGGATGGATGGGAGTTCTTCCCTCAGTTTTGTGTTCTCCTTCCAAAAAGACATCTTCTCTTCCCTTCTATTACTTAAGTAGCCATGTTGTCGTAG
Seq C2 exon
GTTTTCCTGAGACGCAAAAATGGACGTGAGGACTTCTATCGAAACTGGAAGGCCTATGCCGCTGGGTTTGGAGACCGCAGAGAAGAATTCTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058645:ENSRNOT00000084563:22
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:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=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:
GGACTCCTATATCCATTCCCTAGGG
R:
AAGCCAGAATTCTTCTCTGCGG
Band lengths:
246-1084
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]