GgaINT0124485 @ galGal4
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
tenascin precursor [Source:RefSeq peptide;Acc:NP_990787]
Coordinates
chr17:2643465-2644349:-
Coord C1 exon
chr17:2644253-2644349
Coord A exon
chr17:2643627-2644252
Coord C2 exon
chr17:2643465-2643626
Length
626 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TCACTCTCGTATTTCCACAGGTC
3' ss Score
11.27
Exon sequences
Seq C1 exon
GTGTTCCTGAGGCGTCAAAATGGAAAGGAAGATTTCTACAGGAACTGGAAGAATTACGTGGCCGGCTTTGGAGATCCCAAGGATGAATTCTGGATAG
Seq A exon
GTAAGTGGCAAGAATTCATCTTATTCTGGAAAGCCCAAAGAAGCAAACAAAGCCCAAAAGACAAGGAGCCATTCTGAAGCCTCTGCTCAATTGGCAGGAGTATTTAAAGGGGAACACAGTCCAGGCAAAGGAGGAGCAAGCTGCAGGGGAGGCTGAGATAGCCAGGTCCAACCCAGTCTCTTCATAAAGATCACACCTCTTGGGTGACCAAATGTTCCAAACCAATGCTCGATGGTGCTCTGTAAGAAGTCAGAACGTGAGAAGCAACTGCAAATGCTCTTCCTTCTGTACTTCTTGGATATCCCTAATAAGAATAAACCAACAATTAATGAAGTGGGGTAAAAAGCAAATGTGTAGAGGCTGGACTACATTTTATTTGCTCGCAGATGGAAGACAGTGATGATCACGCAGTACTGGCTTTGGTTACTTTTCTCCAGGCACTCCATGCTGCTGTGATTTGAAGGGCTGAGATGGTCTCTAAAACTGTTCCTTTTTCATTTTGTGCCAACATTGCCCCACAGCTTAAATAGCCTATTTTCCTAACTCATGCTATTGTCCTGCGGTGTCTGTCCAAGCCAGTTTGACGCCTTTTGTAGGACAAATGGATCACTCTCGTATTTCCACAG
Seq C2 exon
GTCTGGAGAACCTCCACAAAATCAGCTCTCAGGGGCAGTACGAGCTGCGTGTGGATCTGAGAGACAGAGGTGAGACAGCCTATGCTGTGTACGACAAGTTCAGCGTTGGAGATGCCAAGACCCGGTACCGGCTGAGGGTGGATGGCTACAGTGGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:21
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCTGAGGCGTCAAAATGGA
R:
CTGTGCCACTGTAGCCATCC
Band lengths:
254-880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]