DreINT0165558 @ danRer10
Intron Retention
Gene
ENSDARG00000021948 | tnc
Description
tenascin C [Source:ZFIN;Acc:ZDB-GENE-980526-104]
Coordinates
chr5:27992200-27995569:-
Coord C1 exon
chr5:27995300-27995569
Coord A exon
chr5:27992386-27995299
Coord C2 exon
chr5:27992200-27992385
Length
2914 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CGCATGTTGACGTGTTTTAGATC
3' ss Score
6.39
Exon sequences
Seq C1 exon
TGATTGATGCTCCTAGCCAGGTGGATGTGCGTGACGTGACGGACACAACAGCCCTGGTCACGTGGCTTCAGCCTGTCGCTCAGGTGGACGGCATCTCTGTTTCCTATGGCCCAAACACAGACTCCTCCGACAGGAACACAATCGAGCTTTCCTCCATAGAAACCCAGTACCATCTGGCTGAGCTGTCTCCTGACACTGAGTATGAGGTCTCTCTTATGGCCCGCCGGGGAGAGATGAGCAGCTTCCCCATCTATGAGACCTTCACAACAG
Seq A exon
GTATGAACACTTTTTAAGAACTAGAAATGCTTCCAGGTCATCCAAAAATGTATTCTGCTTAAGGCAATGCAATATAAGTGAATACAGTGAGTTGAAAGTTTAAAGGTCCAGTGAAGTGCTTTGATGTGCATTTTATTTTATGTTTATCTGACGTAATCTTAATTGAAAAATGAAGAGAGGGTCGGATATAGAGTAGCTCCTCCCCTTTAAAAAATAACAGCCAATAGTGTAATGTTTTTATCACAGCCGTGATAGAGTGGTTGAGCTCATCAACTCAAGTGCATCAACTGAAAAGCAAATGAGAAGTGTCTTGAAGGAGGCAGGGCATGTCAGATACTAGAGAGCGTTTAATTGGTCAAGATTTGATGAGAAACTAAGTTATGAGGAGACGTGAAAAAAAATTATGAGCTATTTATGCATATCTGACAAACTGTAAGCTTTGAATGTTCATATATAATGTTCATATATAATTATTATAATAATAATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAATATAAAACCTTACATTTATATGGTGCTTTTCTGGACATTCAACGCATTTTTGGGGGAATCTACTCATTCACCACTAGCTTGCAACATCCACCTTGGATGACAAGACAGCAGCCATAATGCGCAAGAACGCATACCATCTGATTGGTAGAGAAGAGACAGAGTGATGAAGCCAATTATGATATGGAGATGGTTAGGAGGCAATGATGGACAGAGGCTAGGACCACGGTTTAACGTTTAATCCGAAAGATGGCACTCACTGACAGTATAGAGTCCCCGTCACTATACAGGGCCATTGGTACCCACACAGACCACAGGATGAGAGCCCCCTGCTGGTCTCACTAACACCACTTCTGGCAGCAACCTAGCTTTCCCCTGTGGTCATGCATCCAGGTACTGACCGGGCACAGCCCTACTTAGCTACAGCGGGTGATCATGTGTGAGTTGCAGAGCGCTAGCTGACGGCTTAAAAGTTTGCTAGTTATCCCTAATTTAAAAAAAAATAAAATAAAACAAAAATTACTGGACCTTTAAAAAAGTTTTCAAAAATGTTATAGTTAAATATGCAAATAAGTCATAATTTCGTTAAATAGGCACGACTTTGCACACATTTCTACCCTAAAAATGTAAACACAATTTGAACCTGACCCATAATTCAGAACATGCTATAAAAAGCTAGAACAAACATAAATTTTTACAGCCTATTGCAGTGTATGTTATGTAGGAACATATTCCTTTGTTAAAAACAAAATGATAAAAAAGTTTAAATGAATAAAACTATAAAGTCTGTTGTTATATAAGTGCTAAAGCATATATTTATGGCTCAGTGTTGAAGAAACCCAAATGGATGAATATTTGTTGTAATCAGTGGTGTAAAGTAAGAAATTACAAAAGTACTCAAAGTAGTTTTAAAATCATGTAGTTGTACTATCCCTTGAGTAGTGCTGTCTCGGTACTTTAACTCCACTACTTTCCTTCAACCTGCAGCCACTACTTTATTTAGTAGAAAAATTAGTCCTGCGATTCCTGTCCAATCAAATCGCACATAGAAACTAAATCGCATCATACTGAACAATTTTAAGACATGGGCACTTTTTAAATGCAGCAAACCATTTGGAAGCAATAAAAGTGGCCAAGAAGATGTCTTAAATCTTTACACACAATGACTGTTTAGACCAGGGGTCACCAACCCTGTTTCTGGAGAGCTACCTTCCTGCAGAATTCAGTCCCAACCCTAATCAAACACACCTGAACCAATTAATAGTACCTAATGCAGCACTTGATAATTACAAACAGGTGTGTTTGGTCAGGGTTGCAACTGAAATGTGCAGGAAGGTAGCTCTCCAGGAACAGGGTTGGTGACCCCTGGTTTAGACTGCTTGTCACTGATCCCAGCAGATACACGTCCTAAGACATACTGATATTAGGTTAGATTTAGATCTTCAGGACAATGTTATTTTGACATCCAGTAACGACGTGAAATGACGTTGATTTTTGGTTGTGTTGGAAAGTAACCAAAATCCAACATCGAGCCAACATCTTAGATCAACAACATATTGATGTCAAATACTGACATTTATTCGTCAGGTGTGGCAACCAAAATCCAACGTCCAATAGACGTTATAGTGGTAACATCCACACAATGTCAAGCTTTTACATTATTAGACCGCATTTAGGTTGCATTGGAAAGTAACCAAATGTAACGTCTGTCTGACGTTAATCATTGATGTCGACCTAATGTTGGGTTCTGACGTCAACCCAAGTTTTATTTCCAAACATAATGCAACTTCCCACATCGTTGAGGTACAATGTCAATCTGACATCATGTTGACATCCTTTGCCTGCTGGGATGAAACTGCCAAATAGTCTTAAACAGTTAGAAAATGCTCTACAGAATGTTACGTTTACACACACATGCACAAATTGCATGTAAAGGCATCAGACTTTCACAGCTCAATACTCTCTTGAATAGTTTTAAAAGGACTACTTTTCACACATATTTGAGTATGATTTACAACATATACTTTTACTCGCACTACATTTTTGGCCAAGTAATGATACTTTTTCTTGATTATGATTTTTCTGTACTCTTTCCTCCACTAATTTTAATTGATAAAGAGTGACAAAAGAAACACTTAAAAGTGCATTTTTGATGTTTTTTATACATTAGATTTAAAAAAAAATACTGAAAAGCCAAAAAACTCAAAATCTTAAATGTGACAGGTGCACGAAAAACAGTTTTTGTCTGTAGTTTCTAGCCTTCAGCAGGTGTGTTGTATACTTAGAGCCGCACTGAAGCAGTTTTGTTTGTCTTGCCTCTGAGGATAATTGTACGTTTACAGGAAGCACTTTCTTTCATCCGCATGTTGACGTGTTTTAG
Seq C2 exon
ATCTGGATTCCCCAAAGCACCTCAAGGCAATTGAGCAGACAGATGAGAGCATAACTCTGGAGTGGAGAAACAGCAGAGCCAACGTCCTCAATTACCGTGTCAAATACGGCCCACTTTCTGGAGGGGAGCATGGAGAGCTGGTCTTCCCCAGCGGCCTGCAAGACACCACTCAGGCTAAGATCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021948:ENSDART00000131729:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.363 A=NA C2=0.349
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=87.9)
A:
NA
C2:
PF0004116=fn3=PU(72.3=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]