HsaINT0185871 @ hg19
Intron Retention
Gene
ENSG00000187626 | ZKSCAN4
Description
zinc finger with KRAB and SCAN domains 4 [Source:HGNC Symbol;Acc:13854]
Coordinates
chr6:28217465-28220002:-
Coord C1 exon
chr6:28219336-28220002
Coord A exon
chr6:28217613-28219335
Coord C2 exon
chr6:28217465-28217612
Length
1723 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
CTAAAAATCGTGACTTCTAGGTT
3' ss Score
5.35
Exon sequences
Seq C1 exon
CCAAAGACATCCTTTGGTGATACTTACTGTGGGATTCAGAGTGGGGTGCAGAGGACGACCCTGCAAAGGCACGGACTATAAGAGAGATCTGTGCAGCTGCGCCTCAGGGGGTGTCCTGGGCCCCTGGGCATGACAGGAGGGGGACCACTTGCAGTTCTACTGGAAAATTTACCACCCTTCCAGAATCCTCTGAAGATATACAGGTCGCAACTAGAGTGAGACCCGAGTACTGCCTTGGGTCAGAATGGCTAGAGAACCGAGAAAAAACGCAGCCCTGGACGCCCAGTCTGCAGAAGACCAGACGGGGCTCCTGACCGTGAAGGTGGAGAAGGAGGAAGCCTCCGCCTTGACGGCGGAGGTGAGAGCACCCTGCAGCCCTGCTCGGGGCCCCGAACGCTCCCGCCAGCGCTTCCGAGGCTTCCGCTACCCGGAGGCTGCGGGCCCCCGCGAGGCGTTGAGCCGGCTCCGAGAACTCTGCGGACAATGGCTGCAGCCTGAGATGCACAGCAAGGAGCAGATCCTGGAGCTGCTGGTGCTGGAGCAGTTCCTGACCATCCTGCCGGGGAATCTGCAGAGCTGGGTGCGGGAGCAGCATCCAGAGAGCGGGGAGGAGGTGGTGGTGCTATTGGAGTATTTGGAGAGGCAGCTGGATGAGCCGGCGCCGCAG
Seq A exon
GTAGAAAGAACAGGTTTAGTATCTGAGCGCTGTGGTCTGTTTCCTCCTGAAATCCCAGATCGGAGCGAGGGGCATTCCTTTAAGGTCCAGGAGTTCTTCATCTCTTTTTGTACTGTGAACCTCCTTGGCAGTAAGGTGAAGTCCCTGGACTCCTTCTCAGAATTATATTTTTAAATATATAAAGAAACTATAAAGGATTACAAAAGAACACAACTATATTGACATACAGTTAGCAAAGAATTAAATTTGTATTAAAGTCATATATGTGGATTTTTATTACTGCACTAAATAATAAGACCTAGGGACAGGGCTTATAATTGGCAATTTCAAAATGGCGATAAGCATCTATTTGCCTGGTTGTAATGTGGTGTGAAAACGTGCAGGTTTTGTTGGTGACAAAGTCCTGGGTACTGCTTATGCTACCTTGATTTGTTGCTTCCATTCATAATTGAAGGAAATGTTAACTCTCTCTTAAAGACCAGTAAAAATAAGATTAGTTTTTGTCCTTTCTAAGTTCATGGACCACTTGGGAGAAAGTCCATGGACCACTGGTTATGAACCTCTGGTAGAAAGTGGGCCTATTTTTACCTCCATGTTCTTCCCTGTTTTATGAGGGACTGTTTCCTCTTTGCATCGTCCTGTGTCCCTGTGCACACAACTTCAGAGGACCTGTGTGGCCAAATCTTCTAACTGGTGAGCTGGATACCAAGGTTCTTGACTTAGGTCTATTGCACGCAAGCCCTGTAGCAGTGGGAAGTCATTGCAAATCTCTTAGCTTCATTCTTCATAAAATATGTGGGAAATTCTGAGCTGCACGTGAGACAGTAACTTGAAAACTGTAATTTAACTATCAATGTCTGGAAGGAAACCTGCTTTTAATGAGGACATAACTATGTGCCAGGCCCTGTGTTAGGTGATGTCACATACTGTGATCTTATTTACTGGTCTCCAAAACCTCATAAAGTAGAAATTATTATCCTCATTTTTCAGATTAGAAAATATATTAGTATTGAGAATTTAGCACCAGTGTCCAAAGGGTTTTCGTAAACACACAGATGTATATAATGAGGGAGCCTAGAGTAATGGTAAGAACACGGGATCTGGAGTCATTCTGTCTGAGCTCCCATCCTAGCATTTCCACTTATTAGCTGGGTGACATGGGCAAGCTGCTTAAACACTGTCCACCCTTGGCTGGGTGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCGGATCACCTGAGGTCGGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACCCGGTCTCTACTAAAAGTACAAAACATTAGCCGGGCGTGGTGGCACATGGCTGTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCCGGAGGCGGAAGTTGCGGTGAGGTGAGATCATGCCATTGCATTCCAGCCTGAGCAACAAGAGTGAAATTCCGTCTCAAAAAAAAAAAAACAAAAAAACCAACAACAACAAAAAAAATGCTGTCCACTCAGGAGAGAGGATCCGGGCCACATCTCCGTTTTCAGCAACTTATCATAAAAATCCAAAATAATAGCTCACAGGGTTGTTATCTATATTAATTGTGTTAATATCATAAGGCTTGTAGAAACAGTGCCTAGAAAATAGAAATCACTTGCACATGGAAAACATAGAAATGTTGGGTAGATAACTAAAAATCGTGACTTCTAG
Seq C2 exon
GTTCCCGTTGGTGACCAGGGGCAAGAACTGCTCTGTTGCAAGATGGCACTATTGACACAAACTCAAGGGTCTCAAAGTAGCCAGTGCCAGCCAATGAAGGCTCTGTTCAAGCATGAATCTCTGGGATCCCAGCCCTTACACGATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187626-ZKSCAN4:NM_019110:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.371 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=66.7)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
CGAGAACTCTGCGGACAATGG
R:
ATCGTGTAAGGGCTGGGATCC
Band lengths:
345-2068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)