GgaINT0039719 @ galGal4
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:HGNC:22942]
Coordinates
chr8:7064615-7065975:-
Coord C1 exon
chr8:7065886-7065975
Coord A exon
chr8:7064879-7065885
Coord C2 exon
chr8:7064615-7064878
Length
1007 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTTCAAAATGCTGTTCTCAGGAA
3' ss Score
6.3
Exon sequences
Seq C1 exon
GCCTGAAACCTGGCATGGAGTATGAGGTTACTGTCATACCTGTGAAAGATGATATAGAGGGTAAACCATCGTCAGTGAGTGGCAGGACAG
Seq A exon
GTAGGTGGAAACTTCCTTTTGTGGTAATGGTTTTACTACAGGTTTTGGGGACAATTCTGTCAATGTCACAGTGTGAAAGGTACTCAAGTTTACTGTTTCTTCATACTGCTGTCAGGGCTGCTATTACCTCATTGAAGCTTGTCTCCGTTGGTTCTAAACCTAGCCTTTGGTTTTACAAAAGGGTGAGGGTGCTGCATCTAAAGATTGAAAAATGTGAAATCAGTTCTGATAAACCTGAGTTTGTCTTGTAAATTATTCAATTAAAATGAAAGTTTCATAAAACTTACAGCCTCCCCACTGTCATTTTAAGGCTGTGCTTCTTCCATATAGCTTCTTGTTATTTTGAACTCCCATGAGTTGGATTTGATCCTTGCGGATCCCTTCTAACTCCGGATATTATATGCTATTGTGATTCTGTGAACAATCTTGGCTCATGTTTTCAAGCTGTTCTTCATAAGCATGGGGAGGCAGGAACACTTTTTGAAAAAAAATAATCCACAATGAGTAAGCCTGCTCACTTTCTTATATAAGCCTTGGGATTTAGAACTAAGACAAACACCAAGGGTATTGCAAGAGCCAACGCTAAACTCTGATTCATCACCTAAAATAGGAGTAGCCTGGGGGAGTTTGAGAGATGGGTCTGCAGGGTAGGCAGAAAGGAAGGAGCAACAAATGGCTGACACTGAAGACAGGGAAAGGAAGGATGCTGTGAGGACAGCAGGCGTGCAGGTAATGCCGAAGTTATTACTCAAGGAAGGTGAGACACGTAGATTTCAAGACCTTTCTGCAGAGAGTAAAGGAAGGTTTCATCTAAAAGGGAGAAAAATCCTGATTTCTTCCCACACTGACCATACCGGTTCCTTGAGGATGCATTTCTTTCTCACTGTCATCCAGGTGACTATGTTTTAGCTGTTTAGAGCAGAAACATAAACGTGCTGTGAGAGGTATTGTAGTGATTTAATTTAGATGGAGTTTCCTAATCCTGCATTTCAAAATGCTGTTCTCAG
Seq C2 exon
GAATTGATAGCCCAACCAATGTGGTGACAGGTCGAGTGACAGAGGACACAGCCACTGTCTCATGGAATAAAGTTCAGGCTCCCATAGACAGGTACATGGTGAGATACACCTCAGCTGATGGAGACACCAAGGAAACAGAGGTAGGCAGTGAAAACAGCATCATCACCTTATTGAATCTGAAGCCAGGCATGGAATACACCATCCACATCTGGGCAGAGAAGGGACCCCATAGGAGCAAGAAAGCCAGCACCAGAGCTCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000043017:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.427
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.4=74.2)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
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:
ACCTGGCATGGAGTATGAGGT
R:
CTGTCAGAGCTCTGGTGCTG
Band lengths:
347-1354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]