GgaINT0125967 @ galGal4
Intron Retention
Gene
ENSGALG00000003441 | GTF3C5
Description
general transcription factor 3C polypeptide 5 [Source:RefSeq peptide;Acc:NP_001025855]
Coordinates
chr17:6783061-6785520:+
Coord C1 exon
chr17:6783061-6784865
Coord A exon
chr17:6784866-6785437
Coord C2 exon
chr17:6785438-6785520
Length
572 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTTTCCATCTTTCCTCTTAGGAA
3' ss Score
11.64
Exon sequences
Seq C1 exon
CTGTTTGAAGTTCGTCCAGTCTGGTCTCGGAATGCAGTTAAAGCAAATATCAGTGTCCATCCAGACAAGCTGAAACTTCTGTTACCTTGTTTGGCCTACTACATGGTAAGTCTGTGTATCTGCCCTTGTTCCTGTCTGAGGCAGTTAGTAGACAGCAAGAGTGGTTCACCTGGGTGTTCCTTGCTCTCTGCAGCTTCTGAGGTCCTATGCGAGATCAATGCTATATAAGAGAAAGAAGGAAAGCAAACCTTCCTCTTGAACAGAAGTTATAACCGTGGAGGATTCAGCAGCTGTTAGCTGCGTTGGATCTGGGCTACTTTGTAGTACAATCAGACACTCAAATTGATTGTCCATCTGGCAACAGTAGCAGATTTTTTTCCTCAGACAGATTCTTGTGACCTCGCAGGTTACTTTTAAAGTCACACAAATATTTGGGCTTCAGTTTTGCCCAGTTTTGGTATGTAAATAGTGGTTGTAGAAAACAATGAAGGAACTGGTAAAGAAATAGATTTGGACAGTGCAGGAAAGCATTAGAATTTTCAAAGAGACTGCAATACAACTATATTTGCAACTTGTCCCCCCTGTTTGTTTACACAGATAACGGGTCCTTGGAGGAGCTTATGGGTTAGGTTTGGGTATGACCCTAGAAAACACCCTGAAGCAAAGATTTATCAAGTACTGGACTTCCGAATTCGCTGTGGAATGAAATACGGTAAAAGGATCTGACCCACAGAGACCATCTCTGCTGTGTGGTTGTAGTTCTTTTATTTTTGTTTGTTTTCAAACTCTTTTGCTCTGATGGAGAGTGCATCTTTTGAGTTCATTCCTTCCTGTAATTCTTCCATGAACTCCTTTAAACTTTATTTTATACTAAGCAATGTGCCAAATGAGGGAAGAAACATTCCAAACCTACAAATACCTTGCTGCCTTTTCTTCTCCATGCATTCAAAGCCCAAGTGTGTGTCAGCAGACCATCTTCACTCTTGCTTAAGGGAAGCACTGAGCAGTAGATTCTGTTGCTTGCATGTGCAGGACACCAGGGCTCAGGCCGTGGTACACTGGGTTCCTTTGCTGTGATTTTGTACAGAGCAAGTTGAGGGAAAGGACTTTCTGAGGTCAAGTAAGTGCTTGAGAGAGCTGTCATCTAGTCATTATGATCAAATCACATCTTCCCCCCCTTTACAACCAAAAAGGGGTTATCTATCTTGCAAGTCAGCATATCCCAAAAATCAGCCTTCATTTCACACAGCAGTCCAGCACTTCTGTTACTGAGCTGGGCATATTCTCAGGGATGCTTCTCCTCAGTTCACTTTGGGTTTTCTTTTCTCACCTCCAGGTTACACCCCTAATGATATGCCAGTGAAAGCAAAACGCAGCACGTATAACTACAGCCTGCCCATCACTGTCAAAAAGCCAGGTATGCCATGCCAGCTGAAGGGCTGTCTGACTCTTCTGTTTCCTTGGTTCACTCCATTCTACTCTCAGGTAGTGAGAAGTCTCCCTGTGCTCCAGCTGAGCCATAATTAGAACTCACACCTTTCCTATGACCAATTTCTGTCTGATAACATCTCTGAGGAATCAGCAGTGCACGCTCAGTTGCTGGGTTGATCTGCTTTTTGCTGAGCAGCCACACTGAATCAACACTGGGAGGCAACAGTACAACACCACAGTGAAATGGTTCCTAATCGGGTTTCTGTTGTCTTTCAGTAAGTCATACAGTCAGTGTACACGATCTGAAGCAGGGTCTTGGTACTCCTGGTGCATCCGGTGCAAAAAAGCCTGCCTCCAGCAGGTATAAACTGAAG
Seq A exon
GTAAATATCACTCTCTTACCACAGTCTTGAAATAGCATAGTAAAAAGGGAGTGTTTTCTATTTTGGAATTCATTAAGGGTGTGGGATTCTCTTCGAGACCTGAGGGAGTTGAAGGTCACAAGATTACCTGGAGAGCCACTAGCTGAACATGTCACTACAGAACTTCACCTGCTGTTCTGTGAATGTATCTCTTACATGGGATTGGTACTTTTGCCCCAGCCTTAAACGCGACGAGAACGTTGTTTCAGTTGAGAAAACTGGAGAACTCAAAGGGCAGTGAAGTGCGAAACATTGCCATGATTTATCGGGTCATACTGCAGAATGAGCAGGGTAAAATTAATATTTAAATAGGAGCCCGTTTGGTTTTTTTCTTCCTTTTTGCTAGAACAAAACAGCTGATGTGCACTAACAAGCTACTAATGAAGCTGTAGCTTGGACACTAAGTATTTTGTGACTAGGGACGGATCTGTGCAGGAAGTGCCCAGTTGTTTACTCAGTACTTTGCTATTACACCAGAGTTGCCCTGTTACACCTCAGAATGCACATTAAATCCTTTCCATCTTTCCTCTTAG
Seq C2 exon
GAATCCGTCTATATTTTCCGGGAAGGAGCCTTGCCCCCTTATCGGCAGATGTTCTATCAACTCTGTGACTTGAATGTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003441:ENSGALT00000039374:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF097344=Tau95=PD(14.2=50.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGTCTCCCTGTGCTCCA
R:
CAAGGCTCCTTCCCGGAAAAT
Band lengths:
348-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]