GgaINT0039721 @ galGal4
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:HGNC:22942]
Coordinates
chr8:7061619-7062922:-
Coord C1 exon
chr8:7062659-7062922
Coord A exon
chr8:7061883-7062658
Coord C2 exon
chr8:7061619-7061882
Length
776 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTC
5' ss Score
6.49
3' ss Seq
CTTTACACTTTATTTCTTAGAAT
3' ss Score
8.6
Exon sequences
Seq C1 exon
AAATTGACAGCCCCACTCACCTGGTGACTGATCAAGTGACAGAGGACACAGTCACCATCTCCTGGGACAGGGTTCTGGCTCTCATAGATAGGTACATGGTGAATTACACCTCTGCCAATGGTGATACTGAGGAGATAGAAGTGGCGAAGAACAAGACTGCCACAACTCTGGTAGGACTGAAACCTGGCACTGAATATGTCATCTACCTCTGGGCAGAGAAAGGAGTGCGGCAGAGCAAGAGGACCAGCACTGAAGCAGTGACAG
Seq A exon
GTATTCCAGAACAATTCTTGTGGTTCTACCCTATGTTGTGAAGGTGATCTGTTTCTACCCTGTCTGCTTCCTTCTGTTTCAGTGTGTACTAGACAGCAATTTATCTTGTGCCCACCTATGATGTGGAAACATTCATATTACAGACACTTCAAGCTTCAGGTAGAAATACTGCCTCCTCTCAAGTCAGGAGAAAAGATGTTAATTAATTCTAGGAACTAACAACTGATCTGTGAATTTAGAAACTATCAGACCAGTGTGAGCTTCATTATGCTTTGCCAAAGCACTGTAGCCCTCACTTACCACACCAGCCATACATGCTGGTTTTGATCTCGAGGTATGCTGAGCTCTGCAGGTGTGGCTGAGTGCCATTCCACAGTATATAATACTGCTGTTGAATCCTACTTACAATTATGTGCCACTGATAAGAATGGCATTAGCCAACGATTCAAGGCCTGGAAGGAAACACTCCCACTTTATTCATCTTCCATAACCCAAAAGGGTGAAGAATTTTTTGAGCCCAGAACCAGTATCAGTTCACTTCATATCGTGGAGGCCTTTGCTTGCAGCATCTGGATGCTTAGTTAAGCTGAAAACTGACTCACTGGCAGCTTCCTAAAAATGAGGAAAAGATAGAGAAGATGAGAGGTCTCACTATCCTGATTAGCTTGAAGGCAGACACTGTGTACATCATCTGTGTCATGGGGCTATAGAAAGCTAAAGCTTTTAAGAGAAGCGTGTGTGTTTTAGTTACTTATACTTTACACTTTATTTCTTAG
Seq C2 exon
AATTGGACAGCCCAAAGAATCTGGTAACCGACCAAGTGACAGAAGACTCAGCCACGATCTCCTGGGATAGCGTCCGAGCTCCCATAGATAGGTACATTGTGAGCTACACTTCTGCTGATGGGGGCAGCAAGGAAATAGAAGTGGGGAAGGCCAAGAGCGTTACAACTCTGACAGGACTGAAAGCAGGCATGAAGTACACCATCCATCTCTGGGCAGAGCTGGGAAGCATGCAGAGCAAGAAGGCAAGCACTGATGCGCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000043017:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.287 A=NA C2=0.213
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=89.9)
A:
NA
C2:
PF0004116=fn3=WD(100=86.5)
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:
TGGTAGGACTGAAACCTGGCA
R:
TCAGTGCTTGCCTTCTTGCTC
Band lengths:
349-1125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]