DreINT0166065 @ danRer10
Intron Retention
Gene
ENSDARG00000020771 | tnr
Description
tenascin R (restrictin, janusin) [Source:ZFIN;Acc:ZDB-GENE-030804-1]
Coordinates
chr2:35438124-35439084:+
Coord C1 exon
chr2:35438124-35438213
Coord A exon
chr2:35438214-35438820
Coord C2 exon
chr2:35438821-35439084
Length
607 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CAACGTTCTCTGTTCTTCAGGTC
3' ss Score
10.04
Exon sequences
Seq C1 exon
AACTAATGCCTGGCACTGAGTATGGAATAGGAATTTCAGCTGTACTTGGTGCCAACCAAAGCACCCCAGCAACGATGAATGCCAGAACAG
Seq A exon
GTATGATTATGGGTTTATGGTTGCCTGATCACCGTAAAGTAACTTTACTTTTAATAACATGGAGTTTGAGTTTCTGCTGCCTACATGCGCAGTTTGTTTGCCAGTAGAATTGATTTACAATTTTTGTGATGGCAAAAAGTTCATGAGAATGGATATTCCCATTTCAAACATTGAAATTGAATTTAATTCAATTCATCTTTATTTTATTGTGCTTTTTACAATGTAGACTGTGTCAACAGTTTTTAGAGTTGAATTTCTTGTCTGCTACTGTAACAGACAAAAAGTGACAGCTATATTTGTTTTACTACATAATTTGTACTGTGCATAGGATATATTTGAATATATTTCATTGTATAATACATAATTATATGATATAATTTAGAGCTCCATCTACATTTTTTTTACTTATATATACTTGACTTAAAAATACATTTTGCCTATGAAAGTTAAAATAAATGTTTTGTTCATTTTAAAAATATATTTTATTGAGCCTCAAAGTAACAAACTATACTTAGCTTATACGTAAAAATATTTTAGCCAGAACTGATTTATTTATATTTATTTGTTATTTAACTGTATGCATGCCTCAACGTTCTCTGTTCTTCAG
Seq C2 exon
GTCTGGACGTCCCATTAGATTTGACTGTTACAGCCTCCACCGACAACACCATCACCCTTTTATGGGGCACAGTGCAGGGGCCTATTGATCACTATAGGGTGACTTACACATCATCCAGTGGAGTCACAACTGAGCTCACTGTGCCTAAAGACGTCACCACCACCACACTGACAAGCCTAGAGCCGGGCACCAAATACACAATCACTGTGGCAGCGCAACGAGGCAGGCAGCAGAGCACGGCGGCCACTATCGATGCCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020771:ENSDART00000015827:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.168
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.4=74.2)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCCTGGCACTGAGTATGGA
R:
TGTGAAGGCATCGATAGTGGC
Band lengths:
348-955
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]