GgaINT0039724 @ galGal4
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:HGNC:22942]
Coordinates
chr8:7057615-7058690:-
Coord C1 exon
chr8:7058558-7058690
Coord A exon
chr8:7057767-7058557
Coord C2 exon
chr8:7057615-7057766
Length
791 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
GCTTTGCTCTCTTCTCCCAGTTA
3' ss Score
8.58
Exon sequences
Seq C1 exon
GAAGTGCAGCTGGGTCCTAGAGAACAGCAGTTTGTGCTGGAAGGACTGGAACAAGGAACAAAGTACACTGTGTTTGTGATGGCCTATAAGGGAGACCACCAGAGCAGAAAGACAGTTGGTACCTTCTCAACAG
Seq A exon
GTGGGATTTGGTCTTGGGTGTTGCACTTGCTCCGTGGGCTCTGCAGCTGTTGTGTCTTATGGTTGAGGTCAGAGATGGGAGTTCCTGTTCTGGGAAACAATGTGATATACTGGGAAAGTATGTGATCAGAAGCAAATTGTCTGGCGAGTTGAAAACTTGTCTTCTGGCTGGGTTCTGTTCTAAGCCACACTGTCTGGAGGCTTGGAATCCCAAGAGGAAACTACCCACACTAGTCAATGCTGCTGGCAAACCCTGCTGGCCAAGTGCAGGGCAAAGCCTCCTGGTGAGTTGCCAGTGGGCAGGAGAGAAGATAATGGGCTAGGGATTTTTCAACACTGTCACAGTAATGATAGGCCAGCAGTTGTGTAAGTACTGTTGTTGTCCTGAATAGCTGCCTAGGTTGTTTCCAGAGAATAGGAAATGTATGCCTGGATGCTGGCAAGTCAAACATTCTTATGCCTTGATGTGAGTGTCTCTTATACTGAGCTGGTTCTCACAGAGGCTGCCAGTTGTGGGTCGGTTGTGAGATACGCAGAAAATGCCTTTTTACTGGCATTCCCACCTTCACAAACCAGGGCTTCTCTTTCTGCTCTCACTGTGACCCAAGGCAGCATCTCTTGCAGCCTCTGGTGATCCCATCCATGCTCCAGCTTCTGAGCAGTGGGGAAGGCTGCCAATGGCTACCTGCTGATGCAGCTGGGCACTTTCTTTATTTCTCTTCCAATACTGTTGTCCATAAGAGATTCCTTGGGGTGTGAGATGTCTCCTCCAGCTTTGCTCTCTTCTCCCAG
Seq C2 exon
TTAGCTTCCTCTACCCATACCCTGCGGACTGCGCCCAGATGCAGCAGAATGGAAACACCTCCAGCGGCACGTACACCATTTATCTCAATGGCGATGGCAGCAGGCCCATGCAGGTGTACTGTGACATGACCACCGATGGAGGCGGGTGGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000043017:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(46.2=82.2)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(20.8=86.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGGTCCTAGAGAACAGC
R:
TATCCACCCGCCTCCATCG
Band lengths:
278-1069
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]