GgaINT0124478 @ galGal4
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
tenascin precursor [Source:RefSeq peptide;Acc:NP_990787]
Coordinates
chr17:2648840-2649885:-
Coord C1 exon
chr17:2649763-2649885
Coord A exon
chr17:2648984-2649762
Coord C2 exon
chr17:2648840-2648983
Length
779 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GACATTTGCATTTGTCATAGGCA
3' ss Score
6.35
Exon sequences
Seq C1 exon
TTGTGGGATCTCCCAAGGGAATCTCTTTCTCGGACATCACAGAAAACTCTGCTACAGTCAGCTGGACGCCCCCCCGCAGCCGTGTGGATAGCTACAGGGTCTCCTATGTCCCCATCACAGGCG
Seq A exon
GTGAGTGTGGGAACATGGATGGTAAAGGGGAGAGTGAAAAGTGTATCTGAGAGATGGCCCTCAGAACAACAGCTGTAAGCCACGGTTATCAGACTTCTTAAAGAGAGTGATATTTCTTAGTAATCTCAGGAAGGGAACGGCTACTGAGCAAACACCGCAGATGCCATGATCATAAAAGAAGTGCTCTTAGATAAAACAGGTAAAGATGTAGATCTCTAGATAATGTAAATGTACATGTGTAGTGATCCCACAAAAGAAAAGAAATGACCTACAATCATGATCAAGCATTTGCCCATGTATTCTGCTGGAATAAACCCAGAATTTGAGAGAAGTATCTGTCATAAATCCTCACAACTTACAGTAATATACAGTATATCTTTATTTAAAATGAGATGGGTGAAGGAGAAACTCATCAGGCTTGGTTTATCTTTGTCTGTCCTCTGCAAGAAGTCAAGCAGTTCTAAACTAGCAAGTCCTATCCTTGCATGTATAAGAATTTGTATGCAGGTAGTGCTGTTTTCATCTCTTTTATAAAGTTTTGATATCAGAAATACTGATTTTTTTCCTCACTGTTGGCATACCAGTAGGAAAGAAATAGAAACCATTGTCTTAGAGTCAGCTGTTGTGGCCACAGTTTGTTTTTCCATTAGTGATAGGAAAAATTCAACTCCTGTGCATGTGCATTCACATTGATCACAATGTGTTTAACCTGAAACACACTTCTTTCAAGCATTTATGGAAAACTGCCATTAATCCATTGACATTTGCATTTGTCATAG
Seq C2 exon
GCACTCCCAATGTTGTTACAGTTGATGGAAGCAAGACAAGGACAAAGCTGGTGAAGTTAGTCCCAGGTGTAGACTACAACGTTAATATCATCTCTGTGAAAGGCTTTGAAGAAAGCGAACCCATTTCTGGAATTCTGAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=92.9)
A:
NA
C2:
PF0004116=fn3=PD(50.0=81.6)
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:
GGATCTCCCAAGGGAATCTCT
R:
AGAATTCCAGAAATGGGTTCGCT
Band lengths:
254-1033
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]