GgaINT1014422 @ galGal4
Intron Retention
Gene
ENSGALG00000026104 | GTF3C4
Description
general transcription factor IIIC, polypeptide 4, 90kDa [Source:HGNC Symbol;Acc:HGNC:4667]
Coordinates
chr17:6635939-6639105:+
Coord C1 exon
chr17:6635939-6636280
Coord A exon
chr17:6636281-6637284
Coord C2 exon
chr17:6637285-6639105
Length
1004 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTTTTTTGTTATCTTTCAGGTT
3' ss Score
13.51
Exon sequences
Seq C1 exon
GGTAAGATGGCGGCGGCGGAGAGCGGGGGCAGCCCGTCAGTGCCCGCGGCGGGGGAGGAGGAGCCGCCGCTGGGGCTCGATTCGCTGGTGGAGGAGGCGGCGGCCGCGGCGGCCAGCGCCGGGTTCCGACTGACGGCGGTGAGGAGAGAGCCGGCGGTGCGGCTGCAGCACGGGGTCAGCGGGTTGGAGCCGCTGGCCTGGTCGGAAGACCACCGGGTGTCGGTGAGCACGGCCCGCAGCATCGCCGTGCTGGAGCAGCTCAGCGACGTGCACAGCGGCGGGCAGGAGATGGTCATCCACCGCACGGCCGTGCCCGCGCCCGGCGCCGCCTGCCTGCTGAAG
Seq A exon
GTGAGCCGCTGTGAGCCCGGCGGATCCCGCTGCGCTGTGCCGGCCCTGCGGGGGTCCGAGCGCCCTACGGGGACGACGTAAATCGGAGCGGCTCCGAGGACGAGCTGATGCTCTAAGGATCGCTTCAGCGCCAGCACTGAGAGCTGCGAGTGCGATTCTGAGTAGAAATGCTGCTCGTGGTGCTGTTTGAGCGGAAAGATTTCCACAGCAGGAGCTGCTTTGTTCTTCTAGGGTGCATCTCATCTTTACACTCCTCAGCAGTCAGCTCCGGCTGAGCATCTTGTTCAGTAATCAATCTGTCAGTGTCACTCTTACTATTATTATTTCCAAAACAACACTTAAGATTACATAAAGCATCTCCTATTTCACGTTACTCCACTCTCGGTGTTATCTGAAGTCCCCCTGTGGTCACCTTGCAGAGCTGATGTATGAAAACGGCCTTTGGTTCAACAGACAAAGCTTCAAAAGCCCCAAGTCCTGGAGGGACACAGCTCAGAGGGAGCACTGATGGTTGGATGCGATCTTTGCAGTCTTTTCCAGCCTTGATGACTCTAAGTCAGAACCTGTACAAATTTCGGCCAACAGAGAAGCTTCAGTTGCCAAGGTTGAGGTCAAATAACCATTAACTCAAGCGCTGTAGCACAGGCTGTGATAGAAATGCTCTGTTTCAGAAGGTTCAGGCTGGAGCAGGCTCTGAGCACCTGACTGAGCTGTATGTATCTGTTCACTGCAGGAAGATGGACCAGATGGCCTTTAATCATAGAATGAATCATAGAATGGCCTGGGTTGAAAAGGACCACAATGATTATCGAGCTTCAACCCCCTGCTATGTGTAGGGTTGCCAACCACCAGACCAGGCTGCCCAGAGCCACATCCAGCCTGGTCTTGAATGCCTTCAGGGATGGGGCATCCATCCAACTCAAATGATCCTGTGGTAATTAATTCCAAAAAAGCCTTCTTAAAATAACATTCTAAACCTTAAGGTTTTTTTTGTTATCTTTCAG
Seq C2 exon
GTTGGCCCAAAAAAGGAGGTAGCAGAATGCAAAGAGAAGTTTGCCAACTCCATGGATCCGACTGTTAGTCAAACTTTTATGCTGGATCGTGTGTTCAATCCAGAGGGAAAGTCACTGCCACCAATGCGAGGATTCAAGTATTCCAGCTGGTCACCACTGGGCTGCGATGCCAACGGAAGGTGCCTGCTTGCAGCGTTAACCATGGACAATCGATTGACCATCCATGCAAACCTCAACAGGCTGCAGTGGGTGCAGCTGGTGGACCTGACGGAAATCTATGGGGAGCGTTTGTACGAAGCCAGCTACAGACTGACGAAGGCTGACACTCCCAGGGGAGAACTAGAAGACTTCTCTGAATTTCAGCGACGACACAGCATGCAGACCCCAGTACGCATGGAGTGGTCGGGTATCTGTACCACCCAGCAGGTTAAACATAACAACGAATGCCGGGATGTCGGCAGCGTGCTCTTAGCAGTGCTCTTTGAAAACAGTAACATTGCAGTTTGGCAATTTCAGCTTCCGTTTCTGGGTAAGGAATCAATTACTTCTTGCAATACCATAGAGTCTGGAATAAGCTCTCCCAGCGTCCTGTCTTGGTGGGAATATGAACATAACAACCGAAAGATGAGTGGACTTATTGTAGGCAGTGCTTTTGGACCAGTTAAAATCCTTCCCGTCAATCTAAAGGCAGTCAAAGGCTACTTTACGCTCAGACAGCCCGTAGTCTTATGGCAAGAAATGGACCAGTTGCCAGTGCATAGTATCAAATGTATTCCTCTTTACCATCCCTACCAGAAATGTAGTTGTAGCTTAGTGGTGGCTGCAAGAGGATCTTACGTGTTTTGGTGTCTTCTGTTGATATCCAAGGCAGGTCTGAATGTCCATAATTCCCACGTGACAGGGCTACATTCTTTGCCAATTGTATCTATGACGGCGGACAAACAGAACGGCACAGTGTATACGTGCTCCAACGATGGAAAGGTAAGGCAGCTGATTCCTATCTTTACAGATGTTGCTTTAAAGTTTGAGCACCAGCTGATTAAGCTCTCAGAAGTGTTTGGCTCTGTAAGGACTCACGGAATAGCTGTTAGCCCCTGCGGTGCATACTTAGCAGTTATTACGACTGAGGGCATGACTAATGGCCTTCACCCTGTTAACAAAAACTACCAAGTTCAGTTCGTTACCCTTAAGACTTTTGAGGAGGCAGCTGCACAGCTCTTGGAATCTTCTGTACAGAACCTTTTCCGGCAAGTGGACTTGACAGATCTGGTACGCTGGAAAATCTTGAAGGATAAGCATATTCCTCAATTTTTACAGGAAGCACTGGATAAAAAGATTGAGAGCTGTGGTTCTACTTATTTCTGGCGGTTTAAGCTGTTTCTCCTGAGGATTTTATACCAGTCAATGCAGAAAGCTCCCTCAGAGGTGATGTGGAAACCTTCACACGAGGATGCAAAAATACTGATATCTGATTCCCCTGGAATGGGCAGCACTGAAGATGATCAAGAGGAAGGAACTTCTAAACAAGCCAGCAAGCAGAGCCTATGTGACACGGGCAAAGGTATGGACATAGATGACACTGCAGATGATTCTCTTCCTCAGTCGAGTGACATAGGAGGCCGCGAGCCAATGGAAGAAAAGCTTCTTGAAATACAGGCACAAATTGAGGCAGTAGAAATGCACTTGACACGAGAACACATGAAACGGGTGTTGGGAGAAGTTTATCTACACACATGGATTACAGAAAACACCAGTATTCCCACCAGAGGAGTCTGTGATTTCTTAATGTCCGATGATGGATATGATGACAGAACAGCACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026104:ENSGALT00000045320:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.316 A=NA C2=0.099
Domain overlap (PFAM):
C1:
PF126572=TFIIIC_delta=PU(29.9=50.9)
A:
NA
C2:
PF126572=TFIIIC_delta=PD(69.1=22.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGCAGGAGATGGTCATCC
R:
ACGCTCCCCATAGATTTCCGT
Band lengths:
352-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]