GgaINT0039271 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7027043-7027955:+
Coord C1 exon
chr8:7027043-7027186
Coord A exon
chr8:7027187-7027835
Coord C2 exon
chr8:7027836-7027955
Length
649 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CAAATCTGTCCTCTGTGCAGCCA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GGAGGACAGACAGCACGGCCATTGGCAATGATGCCACCGAGTACATCATGCGCCTTCTGCAGCCTGCCACCAAGTATGAGATCGGAGTGAAGAGCGTGCGGGGCCGGGAGGAGAGTGAGGTGGCCTCCATCACCACATACACAG
Seq A exon
GTGGGAAAGGGCTCCCAGTGGCAGGCAGTGATCAACTGGGCCATGTCCTGTCCTGGGGAAGGGCTGGCAGCCCATACTGTTTCTAGCAATCAGACAGCCAAGAGCAAGCTGAACCTAATGGCTTCCTGAGGTGAGCTCGAGATGATGAGTGAGATTCACACGGACCCACTGGGGACTTTCAAAGTATGCCTAAGCAAAGCTTTTCCTGTATATGCATGGCTTGTCATGGAGAGAGTGACAAATCAGTGTACCAGTCACGGGGAGGGCAAAGATGTGATGCTGGGAAGCCATAACAACCTTTCCTATAGGAAGTACAGGCTTCCAAAAATAATCCCCAGGGAAATGTGTGTCAAAGCCCTGAAACAAACAGCATCTGTTGCAAGAATAAAACTCTCTGCTATCCCCAGACTTCTCAAAACCTAAAAAAACCTTAGCTCCCCAGACTGTGTATCAGGCAGACAGTGGAAGGCAAACCCCAGACAGTGGAGCAGTACAAGCTACAACATGCTGCTCTCCAGCTAGGGCAGCAATATCTCCTCTGTAGGTAAATGTGTGCCTGGGAAGAGAGGCAGGGCCACAGGATGCCCTTCCAGCTCCTAGTCCGGAGTCCCTTAATGCACCTGACCCTGCAAATCTGTCCTCTGTGCAG
Seq C2 exon
CCATGGATGCCCCGCTGGGTGTCACTGCCACCAACATCACCCCCACTGAGGCACTGCTGCAGTGGAACCCCCCGCTGATGGATGTGGAGAGCTACGTCCTCGTCCTCACCCGCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.6=81.6)
A:
NA
C2:
PF0004116=fn3=PU(49.4=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:
GAGGACAGACAGCACGGC
R:
CTGTGTGGCGGGTGAGGA
Band lengths:
263-912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]