GgaINT0125968 @ galGal4
Intron Retention
Gene
ENSGALG00000003441 | GTF3C5
Description
general transcription factor 3C polypeptide 5 [Source:RefSeq peptide;Acc:NP_001025855]
Coordinates
chr17:6785438-6785949:+
Coord C1 exon
chr17:6785438-6785520
Coord A exon
chr17:6785521-6785806
Coord C2 exon
chr17:6785807-6785949
Length
286 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
TTCTTCTTGTTGCTTTTTAGCTT
3' ss Score
10.06
Exon sequences
Seq C1 exon
GAATCCGTCTATATTTTCCGGGAAGGAGCCTTGCCCCCTTATCGGCAGATGTTCTATCAACTCTGTGACTTGAATGTGGAAAG
Seq A exon
GTACTACACACTGCCAGCTGACTCCTCTGTTAGAGCTAGATTTCAAAGCCTGTTCATATCCACTTCATTACTCTCACTCTCCTTGACCAGAAACTTAAGAGATATTTGGCTTCTGAATAAAAACAGAGCAGACTTCTCACCTAAACTTCCTTTCCCATAGGGCAGGTGAATAAGCAAATATGCTTTCCAACTCAAGGAAACCAAAGTAGGCCACAGTCTGTCTTATTTGAAGCCTGCAACTGAGTGTAGAATGCTAACATTTTACCTTCTTCTTGTTGCTTTTTAG
Seq C2 exon
CTTACAAAAAATCATCCATCGGAATGATGGCACAGAGTCAGAATGCACGGAGCGGGATGGGTGGTGCCTTCCAAAGACTAGTGATGATCTGCGAGATAGCATGTCCCTGATGATAAAGCAGATAATCAGATCCACAAGACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003441:ENSGALT00000039374:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
TCCGTCTATATTTTCCGGGAAGG
R:
GGTCTTGTGGATCTGATTATCTGCT
Band lengths:
221-507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]