GgaINT0039720 @ galGal4
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:HGNC:22942]
Coordinates
chr8:7063524-7064878:-
Coord C1 exon
chr8:7064615-7064878
Coord A exon
chr8:7063788-7064614
Coord C2 exon
chr8:7063524-7063787
Length
827 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ATGAAGAGTTTTACTTACAGGGA
3' ss Score
2.76
Exon sequences
Seq C1 exon
GAATTGATAGCCCAACCAATGTGGTGACAGGTCGAGTGACAGAGGACACAGCCACTGTCTCATGGAATAAAGTTCAGGCTCCCATAGACAGGTACATGGTGAGATACACCTCAGCTGATGGAGACACCAAGGAAACAGAGGTAGGCAGTGAAAACAGCATCATCACCTTATTGAATCTGAAGCCAGGCATGGAATACACCATCCACATCTGGGCAGAGAAGGGACCCCATAGGAGCAAGAAAGCCAGCACCAGAGCTCTGACAG
Seq A exon
GTAAGTTGCAGCGGCACCAGGAGTAAACTGGCTCTGAATTTCAAACACCTTTATTAATTTGACTTGTTTCAGTACAGCTTCTGTATTGCACAAGTTTTAGTGAGGCAATAAAATCATTTCATTCTTATCAGTGTGACTGACAGGTCTTCAGCTTAGCAGAAGGTTCTTTGTTTTGAATCCTGTTATGTGCAGACACTATGGCTTGGCTCCAGTTTTTGTCAGTACAGAGAATGGTGAAACACAATGAAAACTAAAGCCTTAGAACAATGATACATTAAAAATGTCTTAAAAATACCATCAACCACCTCCAAGCTGTTCTTGTGACTCTTGTGACCTTGCCCAGTAGTAAAGTGAGTTCATGCAAGTGTTGCACAGTCAGTCGTGACAGTGTTTGTTGAAAAGGAAAAACTAAATGTATTGGTATTCATGGCATAAGGTAAGAATTGTGTGGGGAATCAAATCTCCTTAACAGGACAGTCACGTGGTGATAGGGATCCTCATTTGTAAAGGCACGTGAGCAGCATCTGCAGCTCTATTGGGAAACCACTCAAAGCACTGCTTTGCTCAGGTTTTTATAATCAAGTCTGATGTGTTCTCATGTGGCCGTGCAGGAGCAGATTCTATTGACTATCTACAAATGTCTGTGTGCATACAAGTCTTTCCAGATCTTTGTCATAGAATAATTTCCCAAAGCTTATCTGTTTTTCCAAATATATGTTAGTCCAATAAAATATACTGCCTCTGCCTATAAAACTTACATTGTCTTTAGACCATTGTGACTACCACAGTGCTATACTGAAACCTCTAATGAAGAGTTTTACTTACAG
Seq C2 exon
GGATTGACAGCCCAACTAAGCTGTTGACTGACCATGTGACAGAGAATACAATCACTGTTGCCTGGAACAAAGTCCAGGCGTTAATAGATAGATACAGAGTGAATTACACCTCGGCTGATGGGGATACAGAGGAGAGAGAAGTGGAGAAAGACAAGAATGTTACCACCTTGGCAGGACTGGAGCCAGGCATGGAGTATGTTATTCACATCTGGGCAGAAAAGGGAGAACAACAGAGCAAGAGGGCCAGCACTGAGGCTGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000043017:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.427 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.8)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
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:
GACACAGCCACTGTCTCATGG
R:
TCTGTATCCCCATCAGCCGAG
Band lengths:
350-1177
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]