DreINT0166077 @ danRer10
Intron Retention
Gene
ENSDARG00000020771 | tnr
Description
tenascin R (restrictin, janusin) [Source:ZFIN;Acc:ZDB-GENE-030804-1]
Coordinates
chr2:35485212-35486532:+
Coord C1 exon
chr2:35485212-35485373
Coord A exon
chr2:35485374-35486368
Coord C2 exon
chr2:35486369-35486532
Length
995 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTGGTCTCTTTTTGTTCCAGGAG
3' ss Score
10.33
Exon sequences
Seq C1 exon
GTTTGGACAACATTCATAAGATTGCAGCTCAAGGTCGTTACGAGCTTCGTATTGACATGAAGGATGGCCAGGAGTCTGTATACGCCAACTATGACAGGTTTTCCATTGGGGACTCCAAGAGCCTTTACAAACTGAGGATAGGAGAGTACAATGGCACCGCAG
Seq A exon
GTAAGGCCGGAGAATATTTTTACTTTGTATATTGACAGAAAATAACTTGTTTTGGATTCCCTGAATAATTTAAACACTTTTCAAAGTTGATATCTTCAGGCTGCCTTCAATAATGCCTCATAATGCCTTCAAAATCGTCAATACTGTTTTCAAATTTTTGGTTTAGTCAGCAACATAATTTTTTTCTACTAAAACTATATTGTATCTTAACCATATTGTTCTCAGGAATTAATGAATGGCAGACAGTTTCAGTTATAGCAGTTCAGAAATGCTTTAAAAATATTAGTGTTAGTATTAGTTTTTAATTATAGACCACAAAATATCTTTCTGGATTTACTGTACACTATTTATTAGTTTGGAATTTGATTGAAATGTTTCATATTTGTTTTAGTGATTTTTCCCAATTTTTACATTGTATTAAATTTAGAATAACATACAAACTGAAAATGACCAATATTAGCTTATTTAATTAAACTGAATTTAATTAAGTTAATTGAATTTATACCTTAAGATTATGAAGGGTTATTCCGTTGTGGCGACCTCTGAAATAGAGACTAAGCCGAATGAAAATGAATGAATGATTGAATGAACCTCATGATCGCTCAAAGTTCATAGTTATGAAACATAAACCTTAATGTGTTTATTTTATTTACAATAACTTTCACTTTCAAATGAAAACCGTATATATATTTTTTTTCATAGTCCCATGATTTTTTAAAAGACAAACATATGTTTATCAGCAAAATTCGACCTCAATATGTTGATGCTGATATAATTCTAGGTTTTTCTAGAAGCTTAACCATTTGTTAAAATGTGAACAAAATAATCTACATTCTGAGAGTCTTAAAGCGAAAATTTACTTTAAAACAGAAAAAAAATATGCTTTAAAATACAATAATATGCTTTAAAAAATATTTATGTTCTTGGTGAAACCTGACTTGAAAGAGTTGTAAGGGTTAAGCTTGTTTTTTATGTGTGGTCTCTTTTTGTTCCAG
Seq C2 exon
GAGATTCTTTGAGCTACCACCAGAGCCGACCTTTCTCTACCAAGGACAAAGACAATGACATTGCTGTCACCAACTGTGCACTGTCTTACAAGGGAGCCTGGTGGTACAAAAACTGTCATCGGGCAAACCTTAACGGCAAATACGGAGAGTCTAGACATAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020771:ENSDART00000015827:22
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=FE(25.7=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=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:
GTTTGGACAACATTCATAAGATTGCA
R:
CTGACTATGTCTAGACTCTCCGT
Band lengths:
326-1321
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]