GgaINT0125969 @ galGal4
Intron Retention
Gene
ENSGALG00000003441 | GTF3C5
Description
general transcription factor 3C polypeptide 5 [Source:RefSeq peptide;Acc:NP_001025855]
Coordinates
chr17:6785807-6787429:+
Coord C1 exon
chr17:6785807-6785949
Coord A exon
chr17:6785950-6786668
Coord C2 exon
chr17:6786669-6787429
Length
719 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGG
5' ss Score
8.6
3' ss Seq
TTTCTTTCTTCCTGATTAAGCTC
3' ss Score
6.65
Exon sequences
Seq C1 exon
CTTACAAAAAATCATCCATCGGAATGATGGCACAGAGTCAGAATGCACGGAGCGGGATGGGTGGTGCCTTCCAAAGACTAGTGATGATCTGCGAGATAGCATGTCCCTGATGATAAAGCAGATAATCAGATCCACAAGACCTG
Seq A exon
GTACGGATGCTTTTTGAACCTCAAAATGCCAAGCAGTATATTACCATTTATCTGATGACATAGAGACTGCGTTGTCATCAGCACTGGGAAGTAGTGCTGCTATATTCACCACCTCTGGCATTCCATGTTCTTGTGTATTACAGTGTGAGAACTGAGGCTGTTGTCCTGCCACATGACATGGGTTGGAGACTAGAAATAGCTAAGAGTAGAGGTTTTCTTATTCACTATTCCAGTATCACAGCCTTCAGGCTTGTAACACTATGTGGTGGAAAGTATAGCGATAATAGGATGGCAGAGACTTCAGCTGTAGTAAATGAGAACAAGCCCAAATGCAGCACCTGTGGACACAGAAACAAAAGAAAAAGGCTACTTACCTTTAGAAGTCCTCAGGTATGCAGGGATCTCCAGCAAGATCCCCTCACCTCCACTGCCAACCCTTAAATGAGGTCTGGGCAGGAATGGATCCTGGCTCCACCCCTTCCAGTCATTCAGATGTATTGCTTGCAGCTGAGCTCCCCTGGGTTGGCCCTGCCTTCCCACCAGGTGCTCAATCACTGCTTCAAGCCTTGACTTAGCATTTGTACTACACATGTGCAACCTTAACTGTGATCCTCAGACTTCTGCCTTATTCTCATTGTTTTATGAACTCTACTGCAAATTTCTTCAGGTTGCACTGAGAGATACATCATCATGTCTTCCTTTCTTTCTTCCTGATTAAG
Seq C2 exon
CTCTTTTCTCAAGTACAACAAGCAGTGAAGATGGCAAAGAACAGCTGGCATATGAGTCTGGAGAGGATGAGGATGATGAAGAGGAGGAGGAAGAAGAATTCAAGCCTTCTGATGGGAGTGAAAATGAGATGGAAACAGAAATTCTAGACTACGTGTGAACTCAGTGAGTAGTCTCACTGCTGCTGGACAGAATCTTCTTGGCTCTTGTTCCTTCAGTGCTGATGGTTCAGCAACCATACACAGGGTGTGTGAGAGCAGAACTTGCACTAAGCTGCTCAATACCCGTCTGCACTGACTGTGGTGCCTGGTGAAGGCTGTCATTTTGGATGTTCAGACACCATGACCCACATGGCATCTGGATGAGGTGCTATGAGATATGGTTCAGTAGGTTGTGGTAGTAATGGTGATGGGAGGACAATTGGACTAGGTGATCTTGTAGGTCCTTTTCAACCTTGTGATTCTATGATTCTATCATCCTATTTTTATAACTGTTGGATAATAAGCCTTCATAACATTGCCACCATGGAGATAACAGGTTTCTTACCAGGCTCCAACTGGTGTTTACTGTAGCAGCTCAACAGTCTCCCAAGAAAAGAGAATGGAAACCAGCTGGCAATACACCTTAAAACAGGAGAAACTATGTTGTCAAATCTCTGTAAGAAATACACCTCGTCTGGGTTGATGGCCATGTGGAAAATAGAAAAATGGTTTGAAGAGGTTACCATTCAGTTACAGAAATTAAAGAACTGCTGGCATTTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003441:ENSGALT00000039374:7
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:
TGCGAGATAGCATGTCCCTGA
R:
ACAGTCAGTGCAGACGGGTAT
Band lengths:
353-1072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]