GgaINT0124482 @ galGal4
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
tenascin precursor [Source:RefSeq peptide;Acc:NP_990787]
Coordinates
chr17:2646052-2646829:-
Coord C1 exon
chr17:2646699-2646829
Coord A exon
chr17:2646185-2646698
Coord C2 exon
chr17:2646052-2646184
Length
514 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
GTTGTTTATCATCCCCATAGGAA
3' ss Score
9.47
Exon sequences
Seq C1 exon
GACTCGATGCTCCAAAAGATTTAAGTGCTACCGAGGTTCAGTCAGAAACAGCTGTGATAACGTGGAGGCCTCCACGTGCTCCTGTCACTGATTACCTCCTGACCTACGAGTCCATTGATGGCAGAGTCAAG
Seq A exon
GTAGAGCACTTGTATCCAAACCTGAAGGGCTGTACCTCAAAACTGGGCAGTAAAGATGCGCCAAAAAGGGTTCTGATTTTCAGGAAAGCAGAATGTCTGAGCATGCTGAAAATCAGTGCTTTAAAGTTACACACACACATGCACACACAAAAAAAAAGCCTTTTGAGGTCTGGAGAATGATATTTCCAGATTTGTCCTAAAGGATGATTCTGCTCAGTTGTTATGTGAGTTGCACAGAGTCACCTATGCAGTGTGTATATTCAAGTCATGTAAACGTTTGTGCTGACCTGCTTTTAAACCACACAGCTTACAGACTATGGCATGAAACATTCACCTCCATACAGTGAAGAAAGTGAGCAGGACAAAACCTTTGAGGAATACAAGTTTTGCATGAAATAACATAAATGGTTAAAGATACAACCGTAATCACCACAAAAAGAAACTGAACTGTTACAGTTCAACTTAGTATGATTTTCTCACTGAGATTTCCTTGTGTTGTTTATCATCCCCATAG
Seq C2 exon
GAAGTCATCCTAGACCCTGAGACGACCTCCTACACCCTGACAGAGCTGAGCCCATCCACTCAATACACAGTGAAACTTCAGGCACTGAGCAGATCTATGAGGAGCAAAATGATCCAGACTGTTTTCACCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(52.6=93.2)
A:
NA
C2:
PF0004116=fn3=PD(44.9=77.8)
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:
GACTCGATGCTCCAAAAGATTT
R:
TGTGGTGAAAACAGTCTGGATCA
Band lengths:
263-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]