GgaINT0124471 @ galGal4
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
tenascin precursor [Source:RefSeq peptide;Acc:NP_990787]
Coordinates
chr17:2675290-2676079:-
Coord C1 exon
chr17:2675810-2676079
Coord A exon
chr17:2675476-2675809
Coord C2 exon
chr17:2675290-2675475
Length
334 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TATTTATATGTTTATTGCAGACT
3' ss Score
7.42
Exon sequences
Seq C1 exon
AACTCGATGCCCCTAGCCAGATTGAAGCGAAAGATGTCACAGACACCACAGCTCTGATCACATGGTCCAAACCCTTGGCTGAAATTGAAGGCATAGAGCTCACATATGGCCCCAAGGATGTTCCAGGGGACAGGACTACCATTGACCTCTCTGAGGATGAAAACCAATATTCTATTGGAAACCTGAGGCCACACACAGAATATGAAGTGATACTCATTTCTCGGCGAGGGGACATGGAGAGTGACCCTGCAAAAGAAGTCTTTGTCACAG
Seq A exon
GTAAGAAGATCTTACTTCTACTTGACTAAATCCATAGCAGATTGGCAAAGAACATCGTTTTTTTCTTCAGATCTGCAAATGTTTTTTGTCTTTTTTTTTTTTTTATGGATTACTTTGTTTGTCTGTCATTCTGGGAATGCTTTATGAAGGTATGGGTCATCATGCTAAAAAAAATCTGCGTAATGTAGTTAAGTGATATCATACAGGAGGGAACAATGTCAGCTTTGTGGGTCATGTTCATCTTCTAAAATGGACTGTCATAAAAGACTGTTGTCATAAGATAATTATTCCTATTACTTATGTCTGGTTTTATTTATTTATATGTTTATTGCAG
Seq C2 exon
ACTTGGATGCTCCACGAAACCTGAAGCGAGTGTCACAGACAGACAACAGCATTACTTTGGAGTGGAAGAACAGCCATGCAAATATTGATAATTACCGAATTAAGTTTGCTCCCATTTCTGGTGGAGACCACACTGAGCTGACAGTGCCAAAGGGCAACCAAGCAACAACCAGAGCTACACTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.495 A=NA C2=0.556
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=90.1)
A:
NA
C2:
PF0004116=fn3=PU(71.4=95.2)
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:
GAGCTCACATATGGCCCCAAG
R:
AGCTCTGGTTGTTGCTTGGTT
Band lengths:
351-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]