GgaINT0039261 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7013384-7014542:+
Coord C1 exon
chr8:7013384-7013860
Coord A exon
chr8:7013861-7014278
Coord C2 exon
chr8:7014279-7014542
Length
418 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
TCCCTCTCTCTTCCCATCAGTGG
3' ss Score
8.99
Exon sequences
Seq C1 exon
GACGCCTGGATTACACCTTACCATGCAGCGGCCACGGGAACTTCAGCCTGGAGTCGTGCCGTTGCATCTGCAGTGAGGGCTGGGCGGGCAGCAACTGCTCAGAGCCGCGCTGCCCACGGGGCTGCTCCAGCCGTGGGGTCTGCCTGGAGGGTCAGTGCGTCTGCGACAATGACTACGGCGGTGAGGACTGCTCCCAGCTCCGCTGCCCCGCCGGCTGCGGCTCCCGCGGGCTCTGCGTGGATGGAGAATGCATCTGCGAGGAGGGCTTTGGTGGGGAGGACTGCTCTCAGCCCCGCTGCCCCCGTGATTGCTCGGGAAGGGGACACTGTGACAACGGCACCTGTGTGTGCGCCGAGGGCTATGCTGGGGAGGACTGCGGGTGGCTGCGGTGTCCCAACGCCTGCAGCGGACGAGGCGTCTGCCAGGATGGCCTCTGCATCTGCGAGGACGGCTACGGAGGGCAGGACTGCTCGGCAG
Seq A exon
GTAGCAGGGGCATGTGGGGGGAGTCAGACCTGACTGAGTGAGGAAGGGACACAGAGTTCCCAGAATCTCACAGGATCTCCACTCAGTGTGGGAGGAACTGAAAGCTGGAGGAGCACTTTGTGCTCACGTCCCATAGTTTGACTGCTTCCCTGTTGTTCCTGTCCCCCAGAGATGCATAAAGGTTTGGGAGGCAAGCAAAAAGCCATTGAGTTTTGTCCAAATATTGGTGGTAAACCACTTTTACAACAGCAGTTCAAGCAGGTTCTCCTGAGCCTTTGCCTTGCAATAAAACATGTGAGCACATGAACCCCAACCAAGAGCCCTTACCCATGTCCAACCAGCAGACCCACACTCCTTCATCCGTGGCCAGAGGATAAGCCATGCATGTCCTGATGCTCTCCCTCTCTCTTCCCATCAG
Seq C2 exon
TGGCTCCTCCTGAAAACCTGCGTGTGACAGGGATCAGCGATGGCTCCATTGAGCTAGCATGGGACAGCCCAGGAGCAGCCACTGAGTACGTGGTATCATACCAGCCAGCGGGGCCAGGGGGATCCCAGCTCCAGCAGCGGGTGCCTGGGGACTGGAGCACCATCACCATCACGGAGCTGGAGCCAGGTGTTGCCTACAATGTCAGCATCTACGCAGTCATCAGCGATGTCTTGAGCAGCCCTGTCACCACCAAGGTGACAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:3
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=0.101
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
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:
GACAATGACTACGGCGGTGAG
R:
CATCGCTGATCCCTGTCACAC
Band lengths:
355-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]