RnoINT0153908 @ rn6
Intron Retention
Gene
ENSRNOG00000002548 | Tnn
Description
tenascin N [Source:RGD Symbol;Acc:1306002]
Coordinates
chr13:77857096-77858968:-
Coord C1 exon
chr13:77858705-77858968
Coord A exon
chr13:77857360-77858704
Coord C2 exon
chr13:77857096-77857359
Length
1345 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
ACTAAGACTTTTCCTTGTAGACA
3' ss Score
5.46
Exon sequences
Seq C1 exon
ATATTGACAGTCCCAAAAACCTGGCGATCAACCAGGTGACAGAGACCACGCTCAGTGTCTCCTGGGACCCAGTACAGGCTGATATCGACAGGTATGTGGTGCGCTACACCTCTGCTGATGGAGAATCCAAAGAATTCTTGATTGGGAAGGAACAGAGGAGCACTGTCCTGACAGGCCTGAGGCCAGGCGTAGAGTACAAGGTTGAAGTGTGGGCCCAGAAAGGAGCCCGGGAGAGCAAGAAAGCCAACACCAAAGGCCACACAG
Seq A exon
GTAATGAACAGCATGGTGTAGCAGGATGATGTCTGTCATGCCATGCTTAGGGGAAGTCAAATTTTAATTTCTCCCTGTGTTGCAGATGGGTACCCCTGGTTCTTGGAAGAGCAGCTTTATTTTTGGCATGATCGGCCTCACACACCATCCCTTACTCCTTTCAGCTGATTTCCCTGTGTGCTAGACCAGTGGTTCTCAACCTCCCTAATGCTGCAATCGTTAATACAGTTCCTCATGTTGTGGTGACCTCCAACCATAAAATTATTTTTGTTGCTACTTCATAGCTGTAATTGTGCTACAGTTATGAATTATAATATAAATAACTGTTTTTTCCAATGGTCTAAGTGACCCCTGTGAAAGAATTAAACCTGCAGGTTGAGAACCACTGGGCTATGCTTTCTCCAAACAGTCTCCAAACTGCTCAGCTGATCGTGTGTACAATTCCTCTTCCAAGTGCTTGGATCTCTTGCCAGAGATACTGTTTTCTCATGAATAATACAATAATACCAGAAAATGAAAAAAAATCAAAACTTACTTTAAGACTCTAGATTTTACATCTGTTGTCACAAGTAAAGGTTTGCTTCTCTACATACAAATTATATTTTAATTATAAAACCAATTAGTCACTGTACATGATAAGTCCTATGAGAGACCTTTACTGTAATGCTAATGAACACAAACTTGTTTGCAAAAGAAAGGATCTCCAACTCAAATCTCTGTATGTTACCTGTCACACTCCTCGAATATAGAGCAAAAGCTTGACGGTCCATGAATGACAAATTAGGTTTTTTTTGAGCTTTTAGTAGAAGTTATACTCTAGATTTTCTTGTTCTGGTTGGTTGGGGTCTCCACATGGATAGGGAAACATTCCTAAGAAGAAATGTGCATGTATGAAGACAAATAAGAAACAAACAACAAATGAACAACCCCCCCACCACCAAAATGGAATGTATGATGTAGAAAAACAACAGAAAATGAAAGCTCACCAGTCACTCATCTGGCAGTTTCTGCACTCTAGACCTTTTAATAGTACATATTGATTTCTTGTCGTTGCCATCACTACCACCACCACCACCACCACCACCACCACCACCACCACCACCACCATCATCACCATCATTTATGTGTGTGTGTGTGCGTCTGCGTGTGCGTGTGTGTGAGTGTACACGTAGACACACACGGGATGTGGTACATGTGTGGAGATCAGAAGATAATTTTCTAGAGTTAGTTCTCTCCTCCAGTTTCAGGGATCACAGTCAGGTCGCCACACTTACGCAAGCATCTTTACTGACTGAGTCATCTTGCTGACCCAATAACACATACTGACTAAGACTTTTCCTTGTAG
Seq C2 exon
ACATTGACAGTCCCAAAAACCTGGTGACCAATCAGGTGACAGAAAATACAGCCACCATCTCCTGGGACCCAGTGCAGGCTGATATTGACAGGTACATGGTGCGCTACACCTCTGCTGATGGAGAGACCAGGGAGGTTCCAGTGAGGAAGGAGAAGAGTAGCACGGTGCTCACAGGCCTGAGGCCAGGAGTGGAGTACACAGTCCAAGTGTGGGCTCAGAAGGGGGCCCGGGAGAGCAGGAAGGCCAAAACCAAGGCCCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002548:ENSRNOT00000003452:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.573
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.8)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGATCAACCAGGTGACAGAG
R:
GTAGCGCACCATGTACCTGTC
Band lengths:
348-1693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]