GgaINT0124484 @ galGal3
Intron Retention
Gene
ENSGALG00000007113 | TNC
Description
NA
Coordinates
chr17:3039072-3039780:-
Coord C1 exon
chr17:3039629-3039780
Coord A exon
chr17:3039169-3039628
Coord C2 exon
chr17:3039072-3039168
Length
460 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CTTGTATGCTGTGGCTGTAGGTG
3' ss Score
6.26
Exon sequences
Seq C1 exon
CTGGTCTTCTTTATCCTTATCCTAAAGACTGCTCCCAAGCTCTCCTGAATGGAGAGGTCACCTCTGGGCTCTACACTATTTATCTGAATGGAGACAGGACACAGCCTCTGCAAGTCTTCTGTGACATGGCTGAAGATGGAGGTGGATGGATT
Seq A exon
GTGAGTAAAGGGGGGAACCTGACATGTATAGCAAGGGTAATAGGTCCCATTCCTGCTTTCCTTCAGCACTGCTCACATAGCTCTGTTATCGGAGTATCAGTGATCTCTCTTCACTGGATGGAGGGGAAGCTGAAACAAACATCCTAGATACCTTAAAAACAGACAGTAAGGTGAAATGAAGGGGAACTGACTCAATTTAGATGGGCATGAGAGTTCAAAGATGCAGAGAATAGAAACTGGAAAACCACCTTACCTGGGGGAGTCTGAGAACACAATAGAAAAGTCTTACTTAAAAAACCTAAGGAGTTGGTGAACCTGGTGAAGGACCTGGTGAACAGGTCTGAGTGATAGGGGCAGGGAAGCAGCAATGCTAAGCTCTGCATTGGCAAAAGCTGCATTGCTAGCACTCCTTCTGCTAAGGCAGTTTGACTGTAACTCTTCTTGTATGCTGTGGCTGTAG
Seq C2 exon
GTGTTCCTGAGGCGTCAAAATGGAAAGGAAGATTTCTACAGGAACTGGAAGAATTACGTGGCCGGCTTTGGAGATCCCAAGGATGAATTCTGGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007113:ENSGALT00000011523:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=100)
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:
TATCCTTATCCTAAAGACTGCTCCCA
R:
CTATCCAGAATTCATCCTTGGGA
Band lengths:
238-698
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]