GgaINT1014425 @ galGal4
Intron Retention
Gene
ENSGALG00000026104 | GTF3C4
Description
general transcription factor IIIC, polypeptide 4, 90kDa [Source:HGNC Symbol;Acc:HGNC:4667]
Coordinates
chr17:6641265-6644060:+
Coord C1 exon
chr17:6641265-6641353
Coord A exon
chr17:6641354-6642253
Coord C2 exon
chr17:6642254-6644060
Length
900 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CAGTGTTTTCTTATTTGCAGATC
3' ss Score
9.55
Exon sequences
Seq C1 exon
GTGCTTTCTAACCTACCAGTCCTGTCAGAGTTTGGTATACAGAAGATGTTTGCTTCATGACAGCATTGCACGGCATCCGACCCCAGAAG
Seq A exon
GTAAATCATGCCTGTGGCCCAAAAGGCCAGGACAGTGTATTCTTACATCTTATTTACATAAAGACCTGAATTAATTTCACTGACTTTTCTCTTTCAGGCAGCTGCATGAAGGTACTAGCATGCATTGTATGCTGTCCTGGTTTTGGCATGCCTTACTGGTAGATGTTAATTACAAAATAGCAACTATGGGAATTAACTTGTTAGTATTGTATTTCCTGGCAGCTGGTAAACACGTAAACTATAGTAGAGTGCTACAACAGTTAGTTTATATTCAAGTTAAAGAAATGAACTAACATGCAGTTCTGCAGATGTGGGATGTCTCTGACTCTCAATGCAAGTTGTATTGATCCAGCACAAGTTAAGAAAAAATGGGCATCCTGCTGGCTTAGGCCCCAAATTCTGTTGATATTTTTCCTCTCTATAAGCTGGGAGTATTCCTGTTATCACTAAGGATCAATTACAGAACTGAAGCCTCTATAGAGAGAGGATGTAACCTTCATTTCCTCCATGTTGGAGGGGGACAAAGAAGAAGGAATTATGGACAGCAAGCAGTGCATCTAATTTCATTAAAAAAACAAGGATGCTAAATTCTGGCATTGCGATTCTTCAGTTTTTTTGCTGTTTGAGTTGTGTGTGACTTTCTCCTATCTGAGACCGCCTAGCTGAGTATGTAATGATGCAGCATTGACTGTTTCACCTTAGTTTTGTTGCCTGCTGAAATGAGATTTAAGCTGGCATTACTTGGAATTTCAAGTCAGAAATGGAGTTGGACTCTCTGAACTCTCAGTTAATCCTGTGTGGTGAATGTACACAGACTTTCAGGTTTACTAGTTTGTCCATTTCGGCACCATTTCTGTTCATCTGCATCTCCAGTTCTAAACAGTGTTTTCTTATTTGCAG
Seq C2 exon
ATCCTGAGTGGATCAAGAGGTTATTGCAAGGACCCTGCACGTTCTGCGATTCTCCTGTGTTCTAGAGAAGAGCTGTGTAAAGACTGAAACTATTTTCTCTACTGCATAAGCTCCCTTCACAGTCGAGAATGATATCAAGTGCAGGAATATGAACTTTACTGAAAGGGGAGGACTCTGTCCATGACCCTGTAAATAGAACGCTGGATGTTCTAGAAACTCCCTATGTCCAGAGGCCATTCCATGCTCCAGAAGCAGAAGTACATCTGGAAGAGTGAGCTCATAAAGCAATTCTGAAACGCACCCCATTGATGTGTCAGCAGCTGGACGTGCTTCCTTTTACTGAAAAGAAACTGAAGTCTTAAGCACACAAAGTGAACTGTCCTCTCTGCAGGGCAACTGTGTGATTTCCCAAAAGCTTGGAGGGAACAGCGGAGCTGCCTCTTGAATAGCCTTGGTGGGTAGAGCAGGCTTTAATTGTAGTGCTTGTTGCCTTTTTTCCCCACAAGTACGGGCACTTGCTGCAGAATATTAAATTAACAAAACAATTTGTGGTTCTAATTTATTGAGGAGCAAAGCCAATGTCAGATGCAGCCATAGGAAAGAAATTGGCCATTGTATTCGTTTCACCTAAAGTCTTGAAGAATAACTGCCTTTGAGCTATTACAACAGTGTTGCAGTTAGAAGGGTAAACTATTGCTTGGATCAAATACAGATCAGTAAAGAAGAGTTTATAATGTAATGAATTTTAAACTATTAGCAATTAGATTAAACACTAATATATATAAAATTTCCAATCTCAGGTTTCCTGCCCGACTGTCTTTCTCTAAAAAAAGGTTCTATTTCTCAATGTGTGTACTTTTCACTTCATTTAACCCTTTACCAACAAGAATCATCTTTTCCAGTACAAGTCAGTACCAAAGCCTTTACCAGTTTACCTTAATTTCAAATGAATTGAGTCTCCCTCATACAGACCTTGTTTCACAGAAATATATCATAAGTAATCACTCCCAGCTGACAGCTTCTCTTTTTCATAATAATGCAGTAAATGCAAAACAAAAAGCCCAACATGGCTACTGTACTCCAGGTAGAGTTTCCACAGCTGGTCTTGGAGCCTGGTGAAGCTGCTCATGTAGAACCCTGACTTTCTCATCAAGAGACTCATAAATAAGGCGGTGATGTAGCATGGCTGAGCCCAGAAATCTGTTCTGCTTTCAGGAAAAAAAATCTGTCTTTTGCATCTAATTCACATAGGGAGCAGGAGAACCCTTTCCAGCTTCCTCTGCAGCGCTAGAGGGATGATACCTCTAAAATATGTATGGTTATATGGTACACTTGTCTTGTTAAAAAAAATGTGGTCAAATAATACAAAGTTTGTGTATTTACATTCCTCTGAATATGAATTGGGACACTCAGATGTGCTGCTCTGTTTGTGACCCTTCTCATTGTGCGTGAAGTCCTCTATATATATTTGAGAGAAGTCGAGGAAGTGTCCTGGCAGTATCAGTCTCCAACAGTGCATGTGTGGATTGGTGCTTACGTTTCCTTGATTTAATGACTATGCATATTTTCTTCATGTTCCTTAACCTTTAGCAGGAGCAAATGTTTTGCAGCTAATGTTAAAACAAGTCGGCTGTCCTCACTATTTGGTGTTTCATGCATTAAGCATGATAGTGCTTTGACTGAGAATAATACTGATATAGTAGACTAGAACAGCAGAAGCACATTCATCTGTAAAATAATTAGTCTCGTTTGTAAATATCCTTGGAAGTGATACCATAACTGTATTAAAGAAATGTTTAGTTTTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026104:ENSGALT00000045320:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126602=zf-TFIIIC=FE(33.7=100)
A:
NA
C2:
PF126602=zf-TFIIIC=PD(22.5=90.9)
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:
GCTTCATGACAGCATTGCACG
R:
ACACATCAATGGGGTGCGTTT
Band lengths:
352-1252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]