GgaINT0039277 @ galGal4
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
tenascin-R precursor [Source:RefSeq peptide;Acc:NP_990607]
Coordinates
chr8:7033348-7034319:+
Coord C1 exon
chr8:7033348-7033444
Coord A exon
chr8:7033445-7034157
Coord C2 exon
chr8:7034158-7034319
Length
713 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTGGTTGCTTGTGTCCCCAGGCT
3' ss Score
9.24
Exon sequences
Seq C1 exon
GTCTTCCAAAGGCGGCAGAATGGGCTGACCGACTTCTTCCGAAAATGGGCAGATTACCGGGTTGGCTTTGGGAACTTGGAGGACGAGTTTTGGCTGG
Seq A exon
GTAAGACCTTCATTCTTGGTCTTGTACCAAAGTATCAAACCTAAGCTCCTCTCCTTTGCAATCTCTCCAGGCTGTTTTCCTTCCCTTGTTCATTCCCTGCCCTTTGCATTTGAAATTCACACTTTTGGGTGATATAAAAGCACACGGTGAAGGTCCCCATTTTGCTGCTCCCAGGCTGGGCACCTTCATGGACCAGCATCTTCTCTTGAACAGTGAACAGTACAGTTAACAGCACAACTTCTCAAGCACCTCTCCTGGCCTTAGCCCGCAAGCCAGTTGCCCAAAGCAGAAAAGAGGTGAGGGTAGACCTACCAAAGCTCTGAAATAGAGCATTCTCCAAGAGTGAACGAATGCTAGCCCTGCAGCATGTTCTGACTCATAAACAGCTTAACAGCAGAAGTCAGTGATGGGTGTGCAGCATGGGAAGAACCAGAGCTCCACAGATGATCATGCCCAGCTTTGGCAGTGCTCAGAATGAGTGTGGGACTCAAACTCACTCTCAGAGCCATGGGGAGGTGAAGCTTGACTGGAGACAGAGAGCTTAGACCCCATCAGTGTCAGCAGAAATAAGGCTTAACCACAAGCTGCCCTCTACTGCCTCGTCTTGTTTTCATTTCCCAGAAACACTTTACTTGCCCCGAGCTTTCTGGATGGCTGATGTAGCAGATCCAGGTGCTGCATCTCACCAGGTGTCTGGTTGCTTGTGTCCCCAG
Seq C2 exon
GCTTGGACAACATCCACAAGATCACATCGCAGGGACGCTACGAGCTGCGCATAGACATGAGGGATGGCCAGGAAGCAGCATATGCCTACTATGACAAATTCTCTGTTGGCGACTCCCGGAGCCTCTACAAGCTCCGGATAGGAGACTACAATGGCACTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:19
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(15.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=100)
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:
GTCTTCCAAAGGCGGCAGAAT
R:
GTGCCATTGTAGTCTCCTATCCG
Band lengths:
254-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]