HsaINT0187009 @ hg19
Intron Retention
Gene
ENSG00000177932 | ZNF354C
Description
zinc finger protein 354C [Source:HGNC Symbol;Acc:16736]
Coordinates
chr5:178504072-178507691:+
Coord C1 exon
chr5:178504072-178504167
Coord A exon
chr5:178504168-178505683
Coord C2 exon
chr5:178505684-178507691
Length
1516 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
ATTCTTCTGATTCATTTTAGGTT
3' ss Score
10.98
Exon sequences
Seq C1 exon
GGATTCCATTTTCAATGCCAAAGTTGATTCATCAGTTGCAGCAAGGAGAAGATCCCTGCATGGTGGAAAGAGAAGTCCCTTCAGATACCCGTCTAG
Seq A exon
GTAAGTGAGAGGCTGGGAAATGGGCACAAGGGGTTCTTTATAGACAAGTAGGTCACAAAGAGGCAGTTCTTGGGAAACTCTTGGAAATACTGAGTCCTCTTGAGATGCTCAGGCCAGTTGTATTTTGTTTGAGTTGTATAGGTTAAAGTACACACAATTACCTAATTGCAGTTATCTAATGTTAACCTATTTTCTATCATGGATTGATGAAAGGAAATCAGGTTTTAACAGAGAGTAGTTTAGAGTCACCTCGAACTAAATCTTTTCACCCAGAATCAAAGCTGAGCTTGGGGCTTGGGCATTTTTCAGGACTTTAAGACATACTGACTTCAAATCTCCTGCAGATTTTCATTATTCTCAAGAGATTCCTACAAAGAGAGTGCAGTCTTTTGGTTGCAGCTTATTAGAAGAAATGAATATGTCTCTCTTTGTGATAAAATAAAAAGAGGAAAATAAAAAGAAAGGTAATATGAAAAAAATTGTTATTCTTCCAATCACCAGGGACAGATTGTTGCACAGGGGTGATTTACTCCATGTTTTCCTCTTTTTTATAATGAGCATCTTAAACTTCGATCACATAGAATCATCACAGTCATGCTGCAGGGCTGTTGTGATTTTCAAAACCTGAATGTCCCCCCACTCCTTTTTTTTTTTTTTTTTTTGAGATGAGTCTCTGTCACCCAGGCCGGAGTGCAGTGGTGTGATCACAGCTCACTGCACTCTCCACCTCCCAGGCTCAAGCGATCCTTTCACCTTAGCCTCCTCAGTAGCTGGGACCACAGGTACATGCCACCACGCCTAGCTAATTTTTTGTATTTTTGGTAGAGACGGGGTTTCACCATGTTCTCCAGGCTGGTCTCAAACTCCTGAGCTCAGGTGATCCACCTGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCGCCCGGCCTGTCTTCTCTTTAACAGACTGTTTCCCCCTTCACAGACTACAATATAAAATCACAGTCACATGAAGTAAAGAAATTTAAGAAAACCAATCCAAATATTTAAAAGATTATCGGGCATAGAGTTTCAGAGAGAGCATGGGGAGAAAACGTAATGAAAGGGACATGTGAGTAAGAAGGAGAAGGTGGACAGGCTGCCTACTTCATTGCCTGGTATATGCATAGTGGAAAATGATGACAGAGTGGAGTATCCCATGGTATTCAGCGTGGGCTTATCATTTGGCATTTTTCTGTATCCTCATATCTTCTACTCAGCCTGTTCTTCTGCATCTAACTTTACTATATCCAGGTGGAATCGCTTCATTTTCATTGTTAATTTGTCCAGTGTATTCTCCCATGCCATTCCTTAACCTGTTTACCTCACTTTCCTTTATCCCATCCTGTTCTTCCCAAGATTCAAGTCAGCATTTGAAATCTGATTGTATCACTCTTCTTTCATATATACTGTTACCAGTTTTTTTGTCTCACCGATACATCAGTTTGTTTCTTCCAGCAGAGGAGGCATTAATTCTTCTGATTCATTTTAG
Seq C2 exon
GTTTCAAGACTTGGCTTGAAACAGAAGCATTGCCTCATAGACAGGACATTTTTATAGAAGAAACATCTCAGGGAATGGTAAAGAAAGAATCCATTAAGGATGGTCACTGGGACATTAACTTTGAAGAAGCTGTGGAATTTGAGAGCGAGATAGAAGAAGAGCAAGAGAAGAAACCTCTTAGACAAATGATAGATTCGCATGAGAAAACCATCAGTGAAGATGGAAACCATACAAGTCTTGAATTGGGGAAAAGCTTATTTACAAATACAGCTCTTGTCACACAACAGAGTGTTCCTATAGAAAGGATACCCAATATGTATTATACATTTGGGAAAGATTTTAAACAGAATTTTGATCTCATGAAATGCTTCCAGATTTACCCAGGAGGAAAACCTCACATCTGTAATGAATGTGGGAAGAGCTTCAAGCAGAATCTGCATCTTATTGAACATCAGAGAATTCATACAGGTGAGAAACCCTACAAATGTAATGAGTGTGAAAAAACCTTCAGCCACAGATCATCCCTTCTTTCTCATCAGAGAATTCATACTGGAGAGAAACCTTACAAGTGTAATGAATGTGAGAAGGCATTTAGCAACAGTTCAACCCTTATCAAACATCTGAGAGTGCATACTGGAGAGAAACCGTATCGATGTAGGGAATGTGGTAAAGCCTTTAGCCAGTGTTCAACCCTCACTGTACATCAGAGAATTCATACTGGAGAGAAACTCTATAAATGCGGCGAATGTGAGAAGGCCTTCAACTGTAGAGCAAAACTTCACAGGCATCAAAGAATCCATACAGGTGAGAAACCCTATAAATGTAGTGAGTGTGGGAAGGGATACAGCCAGTTTACATCTCTAGCTGAACATCAGAGGTTTCATACTGGAGAACAACTGTATACATGCTTGGAATGTGGGAGAACCTTCACACGTATTGTAACCCTTATCGAACATCAGCGAATTCACACTGGACAAAAACCTTATCAGTGCAACGAATGTGAGAAAGCCTTCAACCAGTATTCATCCTTTAATGAACATCGGAAAATTCATACTGGGGAAAAACTTTATACATGTGAGGAATGTGGGAAAGCCTTTGGTTGCAAATCTAACCTTTATAGGCATCAGAGAATTCATACTGGAGAGAAACCGTATCAGTGTAATCAGTGTGGAAAGGCCTTCAGCCAGTATTCATTTTTAACCGAACATGAGAGGATCCACACTGGAGAGAAACTGTATAAATGTATGGAATGTGGGAAAGCCTACAGTTACAGATCAAACCTTTGTAGACACAAAAAAGTTCACACGAAAGAGAAACTCTATAAGTGGAAGGAATATGGGAAACCTTTCATCTGCAGCTCCTCACTTACCCAGTATCAGAGATTTTTTAAAGGAGATAAAGCCTATGAGGTTTAGTTCATCTCTCAAATAATCCAAGACTTCTCACTGGGGAATAAGGGAATAATAAATAGGGTACAAACTCCTAATAGATTTGTCTTTTTTACTTCTCCTGAAGGAAATATGTTAGTTGCCACTAAGTCATGATAAAATTGATCAGTGAGACTATGAAGAGCACTGACTTGTTAAATTTTAAAAGAACCATAAATTCTAAGGTATCTAAAAACCTATGAGTATTTAATTCATAGAAAAAATGTAAAAGGTCTTTTTAAAAATCATGAAAAATAGTTGAATATACATTTTGTTTCTCTCATAAGACCATATTCCCTTTAAAAGAGTAAGCTTCAATATGTGAATTTTCTTTTAAAAACAGTCACTGAGTTAATAATGTAAATAAGTGTGTGGCCTTCTTTAAAATAGCTGGCTAACATAGGAGGCACTTCTTTTCATAAAGAGAAGCTAAACATAAAAAGGAATTTTAAATTTAACTCTTCACATGGAAATAATAAAGCTCTTTATATGAGCTGTCCCACCAGCAACTTATATATGTAAACATACATATATACACATATGCATGTGTGTGTGTAAACATAAAAGTCCTTTATTATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177932-ZNF354C:NM_014594:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.5),PF134651=zf-H2C2_2=WD(100=5.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGATCCCTGCATGGTGG
R:
CACTCTGTTGTGTGACAAGAGCT
Band lengths:
342-1858
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
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)