HsaINT0185870 @ hg19
Intron Retention
Gene
ENSG00000189298 | ZKSCAN3
Description
zinc finger with KRAB and SCAN domains 3 [Source:HGNC Symbol;Acc:13853]
Coordinates
chr6:28331469-28334524:+
Coord C1 exon
chr6:28331469-28331592
Coord A exon
chr6:28331593-28333202
Coord C2 exon
chr6:28333203-28334524
Length
1610 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CCAGTTATTTGTTGTTTCAGGTG
3' ss Score
9.22
Exon sequences
Seq C1 exon
GGGTTGTTGAAAGTGGAAGATGTGGCCCTGACCCTCACCCCTGAATGGACACAGCAGGATTCATCTCAGGGGAATCTCTGTAGAGATGAAAAGCAGGAGAACCATGGCAGCCTGGTCTCCCTGG
Seq A exon
GTAAGACTAAAGGACACTAATTTCTGTTAAGGTTTCTTGGCATTCTTTGTATATTAGAACCTGTTGAGCTATTGGAAGCTGTTGAGCCCTGTTATGTTTGGATTCACAATCACCATTTCTGAAAGCCTGTAACTGACTAGCTCCTTACCCTTTCTTTTTTTGTTGTTTTTGAGAGATAGGGTCTTGCTCAGTCACTCAGGATAGAGTGCAGTGACACAATCATGGCTCACTGCAGCCTCAATGTTTTGGGCTAAAGTGATCCTCTCACCACAGCCTCCCAAACTGCTGGGACTAAAGGCATGTACCACCACACTTGGCTAATTTTTTAATTTTAATTTTTTGTCGAGATAGAGTTTTGCTATGTTGCCTAGGCTGGTCTCGGACTCCAGGGCTCAAGCAATCTTCCTGCCTTGTCCCCTCAAAATGCTGGAATTACAGGCATGAGCATGAGCTACTCCACCTGGCCTGCTTATCCCTTCTGACCTTGCTTTCTCCTCTCCGTGCCAGTATTCTAGTTAAGTTAAATGGGTTGAAGTCGATACAACCCCGAGTACAGGTCTGGCTCACAGGAGATGCCCACTAAATGTTGATGTCCTCCTGTTCCTATCCCTGACCGAAGAGGAAAGCTGGGAGGCCTCTTCAGGAAATGGGCCTTGGGACCATAGAGTGTGAGAGAAGTGTCCTTAGACATTGACTATAGACCCTGACCTCAGAGATGAAGGTGCAGAGGCTGAGAAGATTGCCTGATTGTCTGAGGCCACGTAGCTAATTGGTGGCATAAAATTCACAGCACTGAATCCAGTTCTGTTTGGGGACCCTGCCTCTGCCTGGGATATGAACCGAGACAACTGTCTTTATCGTATCATTGATCAGTGCCCAATTTCTGAGTCTCCACTTTCGCTGTTTCGTTTATTTATTTCTTTTGTTTTTGAGATGGAGTCTCACTCTGTCGCCCAGGCTGGAGTGCAGTGGTGCAGTCTTGGCTCACTGCATCCTCTACCTCTCATGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTATAGGCACCCACCACCATGCCCGGCTAATTTTTGTATTTTTAATAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTTTTGAACTCCTGACCTCAAGTGATCTGCCAGCCTGAGCCTCCCAGTCGCTGTTTCTCAAAGGTATTTCAGAAATCCTTCCACATGCTCCATTTACTGTCACTTTCTGTTCAACCGTTTTAGTATCTAATCCTAGGTGCATGGCCCTGCCTTACAATTCTTAGAACTTAGAACGACCACATACATCCCCAGCATAGTCCTGGATCCAACCACATACATCCCCAGCATAGTCCTGGATCCTCACCGTCTTCTACCCACTCCCTCCACTCCCAGTGTGTACCTTTCCAATGGCCCCATTCCCATTCTTAGGTCTCTCTCCTCCCCAGCACTCCTGTTCTCCCCTTTTATTCCCATCCTTATTCTAGCACTTAAATCCTCATCCCAGGCATTTATAGACCTCTGTAATTCTTGCCTCCCTGGTACTCATCACAGAGCTTTCCTTCCATGGCATAAGCCACAGTTGCCAGTTATTTGTTGTTTCAG
Seq C2 exon
GTGATGAAAAACAGACTAAGAGCAGGGACTTGCCTCCAGCTGAGGAGCTTCCAGAAAAGGAGCATGGGAAGATATCGTGCCACCTGAGAGAAGACATTGCCCAGATTCCTACATGTGCAGAAGCTGGTGAACAGGAGGGCAGGCTACAAAGAAAGCAGAAAAATGCCACAGGAGGGAGGCGGCACATCTGCCATGAATGTGGAAAGAGTTTTGCTCAAAGCTCAGGCCTGAGTAAACACAGGAGAATCCACACTGGTGAGAAACCCTACGAATGTGAAGAGTGTGGCAAAGCCTTCATTGGGAGCTCTGCCCTTGTCATTCATCAGAGAGTCCACACTGGTGAGAAGCCATATGAGTGTGAAGAATGTGGTAAGGCCTTCAGTCATAGCTCAGACCTTATCAAGCATCAGAGAACCCACACTGGGGAGAAGCCCTATGAGTGTGATGACTGTGGGAAGACCTTCAGCCAGAGCTGCAGCCTCCTTGAACATCACAGAATCCACACTGGGGAGAAGCCGTATCAGTGCAGTATGTGTGGCAAAGCCTTTAGGCGAAGTTCACATCTCCTGAGACATCAGAGGATCCATACTGGGGATAAAAATGTTCAGGAACCTGAGCAGGGAGAGGCCTGGAAAAGTAGGATGGAAAGCCAGTTGGAAAATGTTGAAACTCCCATGTCTTATAAATGTAATGAGTGTGAAAGAAGTTTCACTCAGAATACAGGCCTCATTGAACATCAAAAAATCCACACTGGTGAGAAACCCTATCAGTGTAATGCGTGTGGAAAAGGCTTCACCCGAATTTCATACCTTGTTCAACATCAGAGAAGCCATGTAGGGAAAAACATCCTATCACAGTGACCCATGCCATACATGCCAGAGTTGGTGCTCATTTGTCACTGATCTGAAGCCACTCCCCCTGGAGTCTCAACTATAGAAATTGTGGGCTGGGCTTTATTTACCACTACACATTATCAGGTGTTAGAAAATGTAGACTGGGTTAGACAAATTATCTTCTAAGTTCTAGAAGGGGTTTGTAATCAAAACATATTTGATAGGAGGCTACGGGAGAGTTGTCTAGAAGAGGTAAGACCTGAAACTGTTTGTTCTCTCCCACTAGAATTAAATGGATGTTTAGACTGGCTACTTGCCCTAAACCAGCACTTGGTGATGTCTACTGGGTGGATGGTTGTGATTTGGGGGCTGCTTCTCTGACCATTCTTTTTGACTGTAATGAATCCTCCACAGTTGGTCAGATTCATAAAGTCTTATATCCCCCTCTGTGCCTTTTCTGCAGGTGCTAATAAATGTTTATTGAATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000189298-ZKSCAN3:NM_024493:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.332
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.2)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=8.7),PF134651=zf-H2C2_2=WD(100=9.1),PF0013017=C1_1=WD(100=20.2),PF134651=zf-H2C2_2=WD(100=9.1),PF134651=zf-H2C2_2=WD(100=9.1),PF134651=zf-H2C2_2=WD(100=18.1),PF134651=zf-H2C2_2=WD(100=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCAGGAGAACCATGGCAG
R:
GAATGACAAGGGCAGAGCTCC
Band lengths:
356-1966
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)