RnoINT0154088 @ rn6
Intron Retention
Gene
ENSRNOG00000002468 | Tnr
Description
tenascin R [Source:RGD Symbol;Acc:3886]
Coordinates
chr13:77664280-77666230:+
Coord C1 exon
chr13:77664280-77664431
Coord A exon
chr13:77664432-77666133
Coord C2 exon
chr13:77666134-77666230
Length
1702 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TGTTCTCTTTCTCTTCACAGGTT
3' ss Score
12.99
Exon sequences
Seq C1 exon
GGGGCCGGGTGTTCTCTCATCCTCAAGACTGTGCCCAGCACTTGATGAATGGAGACACTCTGAGTGGAGTTTACACCATCTTCCTCAATGGGGAGTTAAGCCACAAGTTGCAAGTATACTGCGATATGACCACAGATGGGGGCGGCTGGATT
Seq A exon
GTAAGTACATGCTGTAGGCACATGTCTTCAGGCTTCTAGTCTACCTGGCTCTGGGCACCTGTGGATTACAATGTCACCATTCTTCAAGATGTTCTCTTATCTATCCCATCCATTTGGAACTTGGTCTCTTCGCTGCCTTCAAGGCCCACTTTCATTCTGTTGCTAAGATAAACATCATGACCAAAAGTGACATAGAGAAGTGTTTATTAGCTTATACTTCATTGTACAGCACTGAGAGATGTCAAGGCTAGAACTCAGAAACTAAAGCTGTGAGCATGAAGAGATGGTACTGGCTTACTCACTGGCTTGTCTTCAGCTACTTTTCATATATAGACCAGGCCTACCTCCTTTGGGATGGTGCTATACTCAGTGAGCTGGGCCCTCCCACTTCAGTCAAGGCAATTCTTCACAGACATGGCCGCAGGCCAACCTATTGAAGGCAATTTTTCAATTGAGGTTTCTTCTTCTGAGGTTATTCTGTGTTGGGTCAAATTAACAATAAAAACTAACCAGGACTCATAGGAAAGATGTAACGGCCTATCCCAAAGAAGGGCTGTAAGATGAGGCTGCCTTGCCCGATGCTAGGAATGCTGTGGAAATGAAGGAGTGAGGCACTTGGATCCTGCTTACCAAGGGCTGTAGCTAATATAAAGAGAGGAGGAGGCGGCTACTCTATGGAAGCACTTTAGCTTCCACAGTGAGGCAATTAGTTGCCTTATCTTGGAGAGTAACATTGATTAGATATGATTAGATATGGGGCAGAATGTGGGTGAGCCTCTAGTTACAAGAGCTATTTGCGTCTTCATCCTGTTCTAGACCCCTCATTCTTCCCTAGAACTGTCATAGCCTTCAAGAAGTAACAGTGGTACGGAGAGAGACATTACTTGTTGATACCACATCCTCTCACACATGATAGGCTAGCTAATATACAGCAGAAGAAACAGGGCAGCCCGGAGGTGCTAGCCACTGTGCACAGGAGCTAGCTCTAAACCAAGCAATAGGGGTTGAACGGGTATGAATGGGAACTCAGCCCCACCCACCCTCCTGTGCACACCCCTTCCTAGCACTGCTCAAACATAGCACCAGAGATTTCATGAACCAAAATGGGAAGGTTTTGAAGAGTTAAATGGTGACTGCACTCATAATCCTCTCAGGAGACATTTTCTTTTATGTTTCTGACATATTTGTGCCTCCTTCTTAAAGCATAATTGGAAATTGAAGCCAAGGCTGATGTATTGGAGGTTAAATGAAATTAGCACTTAAACAGCTTGGAAAGTGAATGATATGCAATTGCTTTGCCTGCAATAAGATGATGACAGTGAGTAGATGATTTGAAGTTGGTCCCAGCGCTTTGGTGAAAAATGCGTCCTACTACTCTCTGTGGTGCAAAAAAGATTAATTTGAGAATCAGGCCCATTTCCCCTGACTATTCAGAGCTTGATATGTATCCTGAATCTTTTCTATATTTCAGGAGTGCAAATTAGTGTCGATATCACACCCCTAGTCTATTTGTCAGATGCATCAGCACTTCAAGTAAAAGGGTTCTGAGCATGCCCTGCAAAACCTGCCGTGGAAACCTTAAACTCACTTCTGAAATGGTTCTGATTCTAGCTGACGTAGAACCCAGGCATATTCGTTTATTAATTATCAATTCTTGCTTTTTCAGATCATCTCCTCTCTCTTGTTCTCTTTCTCTTCACAG
Seq C2 exon
GTTTTCCAGAGACGGCAAAATGGCCAAACTGATTTTTTCCGGAAATGGGCAGATTACCGTGTTGGCTTTGGGAATCTGGAGGATGAGTTTTGGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002468:ENSRNOT00000003407:19
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCGGGTGTTCTCTCATC
R:
AGCCAAAACTCATCCTCCAGA
Band lengths:
246-1948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]