HsaINT0185874 @ hg19
Intron Retention
Gene
ENSG00000187626 | ZKSCAN4
Description
zinc finger with KRAB and SCAN domains 4 [Source:HGNC Symbol;Acc:13854]
Coordinates
chr6:28212490-28214870:-
Coord C1 exon
chr6:28214747-28214870
Coord A exon
chr6:28213754-28214746
Coord C2 exon
chr6:28212490-28213753
Length
993 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CCGGCCATTTGTTGTTTCAGGTG
3' ss Score
9.58
Exon sequences
Seq C1 exon
GGTTTGCTGAAAATGGAAGATGTGGCCCTGACCCTCACTCCTGGGTGGACACAGCTGGATTCATCTCAGGTGAACCTCTACAGAGATGAAAAGCAGGAGAACCATAGCAGCCTGGTCTCCCTTG
Seq A exon
GTAAGACTGAGACACTAATTTGTCTTAAGATTTCTTGGCATTCTTTGCGTATTAGAACCTATTGGGCTGTTAGAAGCTGTTAAGCCCCCATTATGTTTGGATTCAGAATCACCATTCCTGAAAGCCTGTTACTGACTACTAGCTCCTTACTCCTTCTGACCTTGCTTTCTCCTCTGTCATGCCAGTGTTCTAGTTAGGATAAGTGGGGTGAAATTGATACAACTCCTTGTACAGGTCTGGCTCATAGGAGATGCTCAGTAAATGTTGATGTCCTCTTGTTCCTATCCCTGACTGAAGAGGAAAGCTGCGGGGAGGGGGGGGCCTCTTCAGGAAATGGGCCATGGATTCAGAACGTGAGAGCCAGAAGCAACCTTAGACATCAACTACAGACCCTGACCTTAGGGGTGAGGGTGCAGAGGCGTAGATTACCTCACTTGTTTGAAATCTCATAGCTTATTTGTGGCACAGTGGGGGCTCTACCTCAGAACTCCTAGCGCCAATGCCAGTTCTGTTTGAGAACTTTGCCTCTGCCTGGGCACAGTTAGAGATGACGGTCCATGTCATTGATCGATCACCAGTCACCAGTTTCTTTGCTTTTGCCATTTCTTGCAGGTGCTTCAGAAATCCTTCCACTTGCCCTGTTACTGTCACCCTCTGCTCACCCCTTTCAAAATCTAATCCTAGGTGCATGGCCCTGCTTACTATTCTTAGAGCTTAGAACCATCACATATGTCCCCTGCATAGTCCTGGGTCCTCACCATTTTCCCTCCACTCCCAGTTTGTACCCTTCCAATGGCCCCATTCTCATTCTCAGGCCTCCTTCCTCCCCAGCACCCCTGTTCTCCCTTTTTATTCCCATTCTTATTCTAGCACTTAAATCCTCATCCTGGGCATATATAGACTTCTGTAATTCTTGTCTCCCTAGTACTCATCACAGAGCTTTCCTCCCATGGCAGGGCATAACCCACAGTTGCCGGCCATTTGTTGTTTCAG
Seq C2 exon
GTGGTGAAATACAGACTAAGAGCAGGGACTTGCCTCCAGTCAAGAAGCTTCCAGAAAAGGAGCATGGGAAGATATGCCACCTGAGGGAAGACATTGCCCAGATTCCTACACATGCAGAAGCTGGTGAACAGGAGGGCAGGTTACAAAGAAAGCAGAAAAATGCCATAGGGAGTAGGCGACATTATTGCCATGAATGTGGAAAGAGTTTTGCTCAAAGTTCAGGCCTGACTAAACACAGGAGAATCCACACTGGTGAGAAACCCTATGAATGTGAAGACTGTGGAAAGACCTTCATTGGGAGCTCTGCCCTTGTCATTCATCAGAGAGTCCACACTGGTGAGAAGCCATATGAGTGTGAAGAATGTGGTAAGGTCTTCAGTCACAGCTCAAACCTTATCAAACACCAGAGAACCCACACTGGGGAGAAGCCCTATGAGTGTGATGACTGTGGGAAGACCTTCAGCCAGAGCTGCAGCCTCCTTGAACATCACAAAATTCATACTGGGGAGAAGCCATACCAGTGCAATATGTGTGGCAAAGCCTTTAGGCGGAATTCACATCTCCTGAGACATCAGAGGATTCATGGTGATAAAAATGTTCAGAATCCTGAGCACGGGGAGTCCTGGGAAAGTCAGGGTAGGACGGAAAGCCAGTGGGAAAATACTGAGGCTCCCGTGTCTTATAAATGTAATGAGTGTGAGAGAAGTTTCACACGGAATAGAAGTCTTATTGAACATCAGAAAATCCACACTGGTGAGAAACCCTATCAGTGTGACACATGTGGAAAAGGTTTCACTCGAACTTCATACCTTGTTCAACATCAGAGAAGCCATGTAGGGAAAAAAACTCTTTCACAGTGACCCATGGTATTCATGCCAACATTGGTGCTCATTTGTCACTGAACTGAAGCCACCCTGGAGCCCTTAATGGTTACAGAAATTGTGGACCAGGGCTTTATTTACCACTATACATCATCGGGTATTAGAAAATGTAGTCTGGCTGAGACGATGAGTTATCTTCTACATTCTAGAAAGTGATTGGAAGAAGTCATTTGATAAGAGGCCATGGGAGAGTGGTCTGGAAGTTGTAGGACCTAAAATAGTTTGTTCTCACCCAGTGTATTTAAATGGCCTTCTGGACTTGTTAATTGCCCTCAGCCAGCACTTTAGGACATCTGGTTGGATGGCTCTGATGTGGGGGGCTGCTGCTCTGACCATTCATTTTGCCTCTAATGAATCTTTCACAAATTGGTCAGATCCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187626-ZKSCAN4:NM_019110:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.353
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=20.6),PF134651=zf-H2C2_2=WD(100=9.1),PF134651=zf-H2C2_2=WD(100=9.1),PF134651=zf-H2C2_2=WD(100=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACCATAGCAGCCTGGTCT
R:
GAATGACAAGGGCAGAGCTCC
Band lengths:
345-1338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)