HsaINT0073476 @ hg19
Intron Retention
Gene
ENSG00000125484 | GTF3C4
Description
general transcription factor IIIC, polypeptide 4, 90kDa [Source:HGNC Symbol;Acc:4667]
Coordinates
chr9:135545728-135555190:+
Coord C1 exon
chr9:135545728-135546342
Coord A exon
chr9:135546343-135553363
Coord C2 exon
chr9:135553364-135555190
Length
7021 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTATATCTCTTATTTTCAGGTT
3' ss Score
10.98
Exon sequences
Seq C1 exon
GAGCTCAATCCCTGGGCAGGGAAAAGGGGGTCCTCGGGGCTCCCCGCTCGCTGTCCTTTTTCTGGACAGGCAGTTCCTTGGCCACCTGGTAGGGCCGCGTTGCCTGGCAACGGCGGGGTCCTTCTTGGCTCGGCGGCGCTCGGGGCCTGAGGGGAGAAAACCGCCGCGGAGGGCGCTGGGGGTGGCGGCGGCGGTCCGGGAGGTGGTCGCGCGACTGCGTGGAGCGCCAGGGCGTCCGACCTCTGCACCTGAGAGAAGATGAACACGGCCGACCAGGCCCGGGTGGGGCCCGCGGACGACGGGCCTGCGCCGTCTGGGGAGGAGGAGGGAGAGGGGGGCGGCGAGGCGGGCGGGAAGGAGCCAGCAGCGGACGCGGCCCCGGGGCCCAGCGCTGCATTCCGCCTCATGGTGACTCGGCGGGAGCCGGCCGTGAAGCTGCAGTATGCGGTGAGCGGCCTGGAACCGCTGGCTTGGTCCGAGGACCACCGCGTGTCTGTGTCCACGGCCCGCAGCATCGCTGTGCTGGAGCTCATCTGCGACGTGCACAACCCGGGCCAGGACCTGGTTATCCACCGCACCTCGGTGCCCGCACCGCTCAACAGCTGTCTCCTCAAA
Seq A exon
GTAAGTCATCCCCCGCCATCCCTGGGGTCTTCCCCTGTCCCCCTCTCGCGGCCGCATCATCCGTCCCAGGGGAATCCGATCCCACACTCTGTCCGGGGATTTCCCTCTTCGCACCGAGCGCTGGGGATTTATTAAGCAGCCAGGGTTACCACAGCTTAAAAAAAAAAAAAGAAAAGCTCTGCAGCTGTCTGCACCCTGTTTCCCCAGGTCACCCGCCGCCGCAAACACAGGTACACACCCAGGGGGCTTCCCGGAGTTGAGTCCCAGGAACCCCTCCTTCGCCCCTCCGTCGGGCCCGCACATGGAGCGGGTTACTCGATGGTGCTTTCTGAGACTCCACCCCCTGTAGATCCAACCCGGGGCCTGCCTCTGTCGTTGCTGCTATTGTTTGGGGCCGACTTTCCGAGGTTCTTGGCTGGCTTTGTCTACTGTGTGTGTCCTCCTCTCGCGCCTCTTTAGCTTCAGAAAAGAAAAACTGGTCCCATCCATTGTCTTAATTGTTTCAGTGACTTTATTATGAATGGTCCTCGCCTCTCCTTGGGCAAACGGGTAAATACTGGATCTCGGGGTTTGTACTTTAGTTTTTCTTTACTAGCTAAACATCTTTGGGATGTTGAATGAAAATAAAGATTCGAAACAACTACCTATCTTAAACTTCAAGCGCAAGGTCAAGTAGTAAGCCATAGCGTTCCTTTTAGTTGCTTAGAGGTGTAAAAACTTTCCATATATCCTTGATAGAGGTGTACGCTTACATGTGAACTGTCAGTGTATATTCATACATTCAATAGATATTTGAATACCATTCTGCTTGGTGCTGCCCCATGTTCTGGAAATAAAGCAGTGTACAAAACAGAACCCCTGCCCTCATGAAGCTTACATTCTTTGGCAAGTCAAGCACAAATGATAAGGTCCTGTCAGGTAGTGATAAGCACTGTAAAGATGTGTATCCGCACATAGAGAACATGTTTATGTGTTCGTAAACTCTTATTTTGGAAAACCATTGAAAATATGAGTCATTAGCTATAGGTAGGGTGCAGATAACCCTCATCACTTTGTAGCATACTTAATTCAAGTTTCAAACATCTTTCTGTTGTTAGATTGTTAGTCAGCTTGTATGACTAAGCTTCCTCTAAGATCTTCTTGAAGAAGATATGAACACATTTGTTCAAGTGTAAACAAATCAGATAGACAGATGCAACCCTATGAAATTGAGAAATACAAAAGGAGGGAGGCAGAAGAAAGGTGATTTAAAAGGTGTATCTTCTGCTGTAAAGGAATTTAACTGTTTCCAAGGATGTTCATCCGCACAGCAACTCAAGGAAAGTATGTATGTCAGTATAGTAGACATCGAATACCTTAGCAGAGAGAATGTAAAGAAAGGAGGGAGTAGTAAGGGGAGAGACTTATGGGGCAGGTCATCTGGTGGTGAATCTGCAGCAGTCCTAAAGAAGGTAGTGTTTGGTTTGTAAGAGGAAGGAAGGAAAGGGCATTCCAGGCGGCAGGAATGAGGCATTCATCCCATGTGCATACACGTTTAAGTCATGAACATAATTAATTATTGTTTGTATAATGACGGATCAGTACATGAGCTCAAGTAGGTCTTCTAGAGAGTCCGAGAAAGTAAGATGAGACCAGTTTGTGGACTTGGAAGGTCGGTATGAGGAAGTTGGCTTCAATCTAGGAAGTCTTTAAGATGCTGTTACAGTTTCATTAGCATAGAGTGACCTGCTGTGGTTCAGGAACATTACTGGATAGAGGCAAGAAGATGATTGTTGTGATCAGTGTAAAATAAAAGTGAAGAGACTGGGCTTTGGCACAAGATAGGCCTATCTATAAAAGGGGGATAATGAAGCGTTGTTTAGGTTTTTTGGAAGATTAAACACACATAATCACTTGGCCCAGTTCTTGGCACGCTGTAAATGCTCAAGGTGAAAATATAATGAGTTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGAGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACAGTGAAACCCCGTTTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGCGCCTGTAGTCCTAGCTACTGGGAGGCTGAGGCAGGAGAATGGCGTGAATCCGGGAGGCGGAGCTTGCTATGAGCCAAGATTGCGCCACTGTACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAGAAAGAAAATATAATGCAGTTATACAGGTATGAAGGAGTAGGAGTCTGGATTAATGTCGTGGTTGTGGACATGAGTATTCTGATAAAATTTTGACTGTCATTTTGCCTCAGTTAACATTTACCACAACTGCTAACTAGTAACAGGAAATCCTTATATAGCTCTCTTATAGTTGACAAATGGCTTCTATGAAATTAATTAGTAACATCTTCCCCTTCTGTACTGTTGTTTTTTTTTTAATATGCACATCACATAAACCATCAGTCATTTAGCAGTCTTTTTAGACTGATTGAAGTGAATGAATGCTGAGTTGACCCTGCAGTTCTACAAGAGCCCTCTGTGGGTTAAAACTGGTGTGACGGTAGGAATGTAAAGAAGTCTGTGTCAGCACTTTGATGACTCCACCCATTGGCAGTCTGTGGATTTAAATCTGCTCGGTGCCGTGCAGCATGCCTTCGCGCTAACCTAAATGGTGGACAGTCTGCAGCGCAGATGACAGTTTTAGTGTAGCACTGTTAGAAAGCTAGGTACTAAACACCTTTGAAGCTTTTGCTCTATAATTCTGTTATTTAGATTATGAATTTGCAGGAAAATCTGCAGTTATGTAATAGTTCAGACATTAATTATCAGCTGTTTTATAAGATTGTATGATATAAAGGTGGACAGTATAAATCTGAAAAGCAATGAAATAGTGATTTAAGAATGTCAGAATTGTTTTTCCCATTGGACTACTGATTTAGTGACTCATCTAGTGAGACATTTGTGTATAGTTCCAAATTCTGATAATATTTGTGTACCGAATTGTATTGTGCATCAATTGTTAGGAGCCTTAGAAAGTATTAACTTCATCTGCTACATTAAGTTAAATAACTGTTGCCTGTCTTTGGACTCTATTACCTGTCCTCAAGAAGCTTACTGTCTAAAAGCTTCAAGTGAATTTTTGTCAGGTGCTTACAAAATGCCTAACAGTTAGTATTAAAAGTATTTGCCATTAAAAGTGATGGTGAAAACCGCAATTACTTTTGCACCAACCTAATAGTGGTCAACTGGAAACTGGATGGTGTACAATTAAATGATTGGCTGCGGGCAGGCCTCTGGGAGCTGGACTTTTTAAGTATACTCCTTGGGCATCTGAATACTTGATTTGTTAACAGTTTTGTGATAGGGAGAGTTGGAGGGAGGTTCAGTAGTCTAGTTGAAACATATGTCAGAAATTGCTACACAAAACCCTAAGACTTTTTCCTACCAGTCAAGATCTGTACTGCTCTCCATCCTGTCAAGAATTCTTCCCACAATGAGTAGGACCAAGGGTTGCTTAAGCTTCCTTTATTTCATCCCGTGCTGCTGCTTTGGGTTACCAATCCTGTGAGTTTACTTCTACAGTAGCTTTTATTTGTAGCAAATTTAACCTATTCTAAGGAGTATTGCTTAGTTCACAGTATTAAAGGATTTGATGAACAATTTTATATCTACCTTTCATTTGGTACACAACTTTATGTCTACCTTGCATTTTTGCATACTTTTATTAGCATTAAATATCTTATTAACATTTACTTAAGGCTGAGTGCTGTGGCTCACACCTGTAATCCCAACACTTTGGAAGGCCAAGGCCGGAGGATCGCTTGAGCCCAGGAGTTAAAGACCAGCCTGGGCAACAGAGAGAGACCGCATCTCTACAAAAAATTTTAAAAATTAGCCAGGCATGGTGGTGTGCACCTGTGGTCCTAGCTACTCAGGAGGCTGAGGTGAAAGGATCACTTGACCCCGGGAGGTTGAGGCGGCAGTGAGCTGTAGTCACGCCAGCTGCACTGCAGCCAGGGTGACAGAGAGGAATCTCAAAAGTTTTTTTTTTAACTTAGTCCTCAGAGTATATTAACAATTATCATAGGTAACTTTATTGAGCGCTTAATATATGCTTTGATATATTGACTTATTTAACCTTCCTAACTTTCTGGGACATGTATTAGTCTCATTTATAAATGAGGAAATTAAGGTCAGAAGGTTTAAGCAATTTGCGCACACAGAGCTGGTATGTAGCAGAGCCAGCATTTGAACCCAGGTAGTCTGGCGTCATAGCACAGATTTTCAGTTATTATGTTGTGCTTCATTATGTCATCTCACAAATTTCATCTGCCTGTAGAAAGCACCGGGCTTTGATTAGCATTGTTTTATTTCCAAGCCAGCCACCTACACCTCATTTAATTGGCATTTTCAGTCTATGATTCTCCAGCAAGTTTCATAGTGTATCCAAGAGACTACTTTAAAATGCCTTCCTAAAATCAAGATACACTGCCTAAAACACCATTCCCAAAGTATTCCACATACTTTTGGATAATAAAGGGTAATAACTGCCTCCCTCACCTCCAAAAAAAAGGCTCTGTTGTTTAAAAAGGCAAAAAAGTTTGGCTTCCTGTGGCTCAGTAGGTCTTTATAGTAGTTCCCTGGCCGAGGCATTTAGTGTCCTCGTGTCACTTTTCAAGGGAGAACGACATATAAATATAGTATTTCCAAAGCTTGTTTGGCCATAGAACTATTTTTCAAGGGACAATTAAAGGGAGTAGTGTACTGTGAAACACACTGTAGGAAAAGTTAGTTCTCTATTTTGTGGACAATTTTCTATTTACATTTCATTTTATTTGCTTATCTATTATGTCATCTAGCAATTTTAGCAGAAAAGAGAATAAGAATAGACTATTCCAGTTACCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGCCATCTTGGCTCACTGCAGGCTCCACCTCCCGGGTTCATGCCATTCTCCTTCCTCAGCCTCCTGAGTCGCTGGGACTACAGGCACCCACCACCATGCCCGGCTAATTTTTTTGTATTTTTAGTAGAGACGGAGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCCAGCCATCCTTTGCTTGTTTCTAATCATCACTCCTGTCTGCACAAACTATTCATTTGTTAATACATTGAGGAATTTTCTGTTAGGCTTAATGGTCTGTAGTTTTTGTTATTTATGTACCATTTGGGGGATTTTTTTTTTTTTTTTTGCAAAGCCTGGCTCCATCACCCAGGCTGGAGTGCAGTGGCGCAATCTCGGCTCACTTCAACCTCTGCCTCCCAGATTCAAGCAGTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGGTTATGGGTGCCCACCACCACGCCTGGCTAATTTTTTGCTATTTTTAGTAGAGATGGGGCCTCACTATGTTGCCCAGGCTGGTCTCAAACTCCTGGTCTCCAGTGATCCACCTACCTCGGCCTCCCAAAGTGCTGGGAGTACAGGTGTGAGCCACCATGCCCAGCCATGGGGGATATTTTTTAACTCTTTGTTGCACTCTGATTTTCTGATACATCCCCAGTTGTCCAGACTTCATCTAGGATGTAGTAAGTGGTTCTGAGTTAATGTCTTCCAAGTGCTTTCTGTGTCCTGGAGGGTAATTCCTCTAGGCTTGAACATTTAAACTCATTCAAGTGACTTTTATTATATCCATGTGTGTCTTAGGCTGGAATTTCCTTTTAATCATGTTCTACCCTTTCCAGTTTAAAGAGCAGCCTCTTTGAAAAAGGAAATTGACACTAAAAAATAATTGAAGCATTCTTTTTCTTTTACCCATTTCTCTAAAGACAGTGGATAAAGTCCTTCCTTCTTCCTGCTTTCAACATAACAAAACATCTTTTGGCTAGTCTCTGCTCTTTTTGGCTTTAGCTTTCCTATTTTTTTATGGTTCTGAACCACTTTCTTTTGGTCATTTATCTCTTCCTCCATCTTTGATGTCCCTTTAAAATCTTATTAAAGAGCTCACAGCTGGGCACGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGACCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGTGCACGCTTGTAATCCCAGCCACTTGGGAGGCTAAGGCAGGATAATCACTTGAACCCTGGAGGTGGGGTTTGCGGTGAGCCGAGATTGTGCCACTGCACTCCAGCCCGGGCGACAGAATGAGACTCTGTCTTACTGTCCCATACATGTTACGAACTTGGAGGAGGGAGAGATGAATGAAAGCTTGAATGACCTCAAAAGGCCTTATAGGGAGAATTAGATCTGGTAGGATAGATGGGATTTACATAGGGAGAAGAACTAGGCAAGGGAGCCGGGGAAAGCTGAGGTGGGAATGTTCAGGAATGGCAACTAGAATAGTCTGATTAGAGTGAACATTATTCTATAGAAACAGTAAACAAAGCAGTTGGAGTTGGCTCTCGCCATTATTTGTCAATGAAATTTCAGATAAAGGACCTAAAGCTGGCATTTGTATTGCAAAGATGTTGTAAAAATCTAAATATCAATTTGTATCAAAGATATATATAGATACATATTTTCATAAATTTGTTAACACCTTTTTTGTTTTGTGACTAGTTCAGGTAAATGCTCTGTTGAATCTTAAGAATCAAGTACATCTCTCTTGCATATATTAATTCTAAGAAGAATATGGGAACCAGGCTATGAATAATGACATTCTGACTTATTTTAAAAAATTGCCATCTCCTTGAGTAAATGCTCATCTGATAGTTTTTATATCTCTTATTTTCAG
Seq C2 exon
GTTGGCTCAAAAACAGAAGTTGCTGAGTGCAAGGAGAAATTCGCCGCCTCCAAGGACCCCACGGTCAGTCAGACTTTCATGTTGGATAGGGTGTTCAACCCTGAGGGGAAGGCTTTACCACCAATGAGAGGATTCAAGTACACCAGCTGGTCTCCCATGGGTTGCGATGCTAATGGCAGGTGCCTCTTGGCAGCACTGACCATGGACAATCGCCTGACCATCCAGGCAAATCTCAACAGACTGCAGTGGGTCCAGCTGGTTGACCTGACTGAGATCTATGGAGAACGTCTTTATGAGACCAGTTACAGGCTCTCTAAAAATGAGGCCCCGGAAGGAAATCTCGGGGATTTTGCTGAGTTTCAGAGGAGACACAGCATGCAGACCCCAGTCAGAATGGAGTGGTCGGGCATCTGTACCACCCAGCAGGTCAAGCATAACAACGAATGCCGGGACGTTGGCAGTGTGCTCCTGGCTGTCCTCTTTGAAAACGGTAATATCGCCGTGTGGCAGTTTCAGCTGCCGTTTGTAGGAAAAGAATCCATCTCTTCATGCAACACAATTGAGTCAGGAATCACCTCTCCCAGTGTATTGTTTTGGTGGGAATATGAGCACAATAATCGAAAAATGAGTGGCCTTATTGTGGGGAGTGCTTTTGGACCCATAAAAATTCTTCCTGTCAATCTCAAAGCAGTCAAAGGCTATTTCACTTTAAGGCAGCCTGTTATCTTGTGGAAAGAAATGGACCAGTTACCTGTGCACAGTATCAAATGTGTGCCACTTTATCATCCTTACCAGAAGTGTAGTTGCAGCTTAGTAGTGGCTGCAAGAGGCTCTTATGTATTTTGGTGTCTTCTTCTGATCTCCAAAGCAGGGCTGAATGTTCACAATTCCCATGTCACAGGCCTTCACTCACTGCCAATTGTCTCCATGACTGCAGACAAACAGAATGGAACAGTCTATACTTGCTCCAGTGACGGAAAGGTGAGGCAGCTGATTCCCATTTTCACAGATGTTGCATTGAAGTTTGAACACCAGTTGATTAAACTCTCAGATGTGTTTGGCTCAGTGAGGACTCACGGGATAGCAGTGAGCCCCTGCGGTGCATACCTGGCCATCATCACCACTGAGGGCATGATCAACGGCCTCCACCCTGTTAACAAAAACTACCAGGTCCAATTTGTTACTCTCAAAACCTTTGAAGAGGCAGCTGCTCAGCTCCTGGAATCTTCAGTTCAAAACCTTTTTAAGCAGGTAGATTTAATAGACCTAGTACGCTGGAAGATTTTAAAAGATAAACATATCCCTCAATTTTTACAAGAAGCTTTGGAAAAAAAGATTGAAAGCAGTGGAGTCACCTATTTTTGGCGTTTTAAGCTTTTCCTCCTGAGGATTTTATATCAGTCAATGCAGAAAACCCCTTCAGAAGCCTTGTGGAAACCCACCCATGAGGACTCAAAAATCTTACTAGTGGATTCGCCTGGGATGGGCAATGCTGACGATGAACAGCAGGAAGAAGGCACTTCTTCCAAACAGGTGGTGAAGCAAGGCCTGCAGGAGAGGAGCAAGGAAGGAGATGTAGAGGAGCCCACTGATGACTCGCTCCCCACGACTGGAGATGCTGGAGGCCGTGAGCCAATGGAAGAGAAACTCCTGGAAATCCAAGGGAAAATCGAAGCTGTGGAGATGCACTTGACCAGGGAACACATGAAGCGAGTCTTAGGAGAAGTGTATCTGCACACCTGGATCACAGAAAACACTAGCATCCCCACCCGCGGACTCTGTAACTTTTTAATGTCTGATGAAGAGTATGATGACAGAACTGCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125484-GTF3C4:NM_012204:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.445 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF126572=TFIIIC_delta=PU(29.9=48.7)
A:
NA
C2:
PF126572=TFIIIC_delta=PD(69.1=22.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)