GgaINT0124472 @ galGal4
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
tenascin precursor [Source:RefSeq peptide;Acc:NP_990787]
Coordinates
chr17:2674671-2675475:-
Coord C1 exon
chr17:2675290-2675475
Coord A exon
chr17:2674761-2675289
Coord C2 exon
chr17:2674671-2674760
Length
529 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTCTATTCTTCATCTCTTAGGTT
3' ss Score
9.66
Exon sequences
Seq C1 exon
ACTTGGATGCTCCACGAAACCTGAAGCGAGTGTCACAGACAGACAACAGCATTACTTTGGAGTGGAAGAACAGCCATGCAAATATTGATAATTACCGAATTAAGTTTGCTCCCATTTCTGGTGGAGACCACACTGAGCTGACAGTGCCAAAGGGCAACCAAGCAACAACCAGAGCTACACTCACAG
Seq A exon
GTAAGGGAATCAAGGAATTGTTACTAATGTTCTCCTGCTGCAATCACCATGGAGCATAAGACCAAAAAATCTTTTTGATCACTATATATAATAGCAGCAAGTAGAGGTTGCACATTGTGAGCAGAAGCAGTTGAATTAAAATGCAGGTAGGTGATATATATTTACAGACCTACAGGTGGGTTAATAGCCATTTGACTTTCATATGCGTCTCCAAATCCCACTGGTCACTTGCCTGAGTTCTGGGTCACATGTCTTAGTGGAGATTGTTTGACATCTCTAAGTTCAAGAGGCTTTTGAATGTACTAAGGGTGCTGTTACTTACGCTAGCTTGCAGCTTTTCCATGTGTATACAAATGGCCATACTGTTCTGCAAGGTTAGATTATGGTACTTTTCCCATGTAATGTGGATGTCTGCATATACCTAGCATATACCTAGTATAGCATACATTCAGACTTCTTTATTTAAACAAACATACCAGTAGGCATCTCCCATGGGTGGGGACTCATATGTCTATTCTTCATCTCTTAG
Seq C2 exon
GTTTGAGACCTGGAACTGAATATGGCATTGGAGTGACAGCAGTGAGACAGGACAGGGAAAGTGCTCCTGCTACCATTAATGCTGGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.556 A=NA C2=0.742
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(71.4=95.2)
A:
NA
C2:
PF0004116=fn3=PD(27.4=74.2)
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:
TGGATGCTCCACGAAACCTGA
R:
TGCCAGCATTAATGGTAGCAGG
Band lengths:
270-799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]