GgaINT0039269 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7026093-7026575:+
Coord C1 exon
chr8:7026093-7026359
Coord A exon
chr8:7026360-7026455
Coord C2 exon
chr8:7026456-7026575
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TTTCTGCTCCATCTCACCAGGGA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GGGTCCGGCCCATCACGCAGCTGCACTTCTCCCAGCTGACGTCCTCGAGTGTGAACATCACATGGAGTGACCCATCCCCACCTGCAGACCGCCTGGTCCTCACCTACAGCTCCCGGGATGAGGAGGCTGCACAGCAGCTGGCACTTGATGGCACCCGCAGGCATGCCAGCCTGACAGGTCTGCGGCCATCCACCGAGTACCTGGTGTCCCTGGTGGCTGTCCATGGTGCAGTCAGCTCTGAGCCTGTCACGGGCTCCATCACAACAG
Seq A exon
GTACCCACTGACTGTGAGACCCTGCCAAGAAGGTGGGTGGAGAGAGGGGGTGTGGACCTGCCTCCCACAGCTGTGCTTTCTGCTCCATCTCACCAG
Seq C2 exon
GGATGGATGCACCAAAGGACCTCAGAGTGGGCAACATCACGCAGGACTCCATGGTCATCTACTGGAGCCCTCCTGTTGCTCCCTTTGATCACTACAGAATATCCTACCGTGCTGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.289 A=NA C2=0.171
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.9)
A:
NA
C2:
PF0004116=fn3=PU(48.1=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCACCGAGTACCTGGTGTC
R:
ATCAAAGGGAGCAACAGGAGG
Band lengths:
169-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]