HsaINT0113810 @ hg19
Intron Retention
Gene
ENSG00000114857 | NKTR
Description
natural killer-tumor recognition sequence [Source:HGNC Symbol;Acc:7833]
Coordinates
chr3:42661156-42663008:+
Coord C1 exon
chr3:42661156-42661200
Coord A exon
chr3:42661201-42662920
Coord C2 exon
chr3:42662921-42663008
Length
1720 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTGTGTTTTCTTCAAACAGATG
3' ss Score
10.35
Exon sequences
Seq C1 exon
GTAATGGAAAAGGTGGAGAATCAATTTATGGTGGATATTTTAAAG
Seq A exon
GTAAGGCTTAATATTTTACGGTCTTTTGTTTCAGTTCTGATATTAAAGCAAGTTTGATCATATACTTTTAATGAGAAGAGGTTTACTTATAGTTCACTTTTTGCATGAAACTAATGCTGCATGAAAATACTTTATTTGCATGAATTTGGGGATAAATTATATTGTAATATATAATTTTTAATTGACAAGATTAATTAAGGCTAACTTTATGGTTAAACATGACTTTCAGCATGGAGGTTAGGCAACTATATACATGAAAACTCCTATCTTCCTGCCTAAAACTGTCAACATATTCTTTTGTTTATAGAGAATGTGGTCTTTTGCAAAATGAAAAGGTAAGAGAACGAAGCTCAGTAACACAAACTCCAATTCTGTTCCCTTGCACCCTTCCTAATAAATTTATGGACAGTCTGGGTCAGGTTGTGGCTGGATTTCTATATTGCTTGAAGACTTGGAAAATTCTGTGTATTATTTCATACATGCTTCTGTATCTTTTTTCATTTCCCAATGGGTTATTAATTTCACATCAGAGAAAAGAGTCTAGTTGTGGGGTTTTTTTTCCCCTAAACCAAGCAATTTCTTTGAATAAAAGTTGAAATTTCGTTTTTCAAAGGTTTGTATGTTTTCTTTTGTATATTAGAACTATGACTGTGTTTATTCTCATAATAGTAGCATCTGCATAAATCTAACTATTGCACTTGCCCCAAAAAGCCTTAGAAAAGTCAGTTGCAGAGATTTGTAATGAAATCTAATATTACTAGGTTTTAACGCTATAATAGCTTCAGTGTTATAATAGTCTTTTATATTTCCTTTGGGGGAAAATGGATTACTACTCTTTTTCAGAAGCCTGTTCCCAAGGTAATCACTTTTTAAAGTTTTCTGTGTTTCTGTTTGTTCTGAAGAAGATTTGTTTGTATGAATGTTAAAAGGACATATAAGTTAGTTTTCAAGGATATTCCTGCTGGAATTAAAATAACTCTAAGTGATCTTTATCACAGATTTTTTTTTCCTTTGAACTAGTAGGAAACAGCTATTTAGCTGGTTCTGTTATGTAGCAATTTAAAACTAATGCTGTAGGCCACTTTGTGGTTGTTCCTTGTGGCAGATACTTTTGTACCTTAAAATTGTATTTTGCTATTTAAATTTTTGTTTCACAGGGCTTTCTTCCTTAGATAATTTTGTGATACAATTGAGTATACACATACTTAATTTAGATATGTTCCTGTAACTTAATATAACATAATTTTTTTGTCTTACAGTCTAGCTTCAATTAAGTTGAATAATAAATTTACCGTATAAAAATTAAACACCTAAAAAGATTATTGAACTTCTTCCATGTATAGCACATTAGGCAAGCTAATTGGAAATTTGGAGGAAGTAAGCTAGAGATTTTTCTAAAATTTTATTAGTTTTCCCTGAAAGTTAATAATTTAAATATCATTTAGCCAAAGTATGTTACTACTAAAAGTGACTGTTCTAAGGCTGTTTGTGTGAAGTATTAAATATATGTTCTTTTCCTCAAGGCTTTAATTAGTATCTTTTGGCCTTTTTATGCTTTTGTTATTTGATTAGCTTAAATTTTTCTTTTCTGAGTGTTCAGTCAAGTTATCTGTACTGACCAGAAGAGGAATTTCATCTTTTGCTTTCTATTTATTACTTGAACATTACTTTAAAGTGACTTATAATTGGAGACTGACAAATTTGTGTTTTCTTCAAACAG
Seq C2 exon
ATGAAAACTTTATTCTCAAACATGACAGAGCGTTCCTTTTATCAATGGCAAATCGAGGGAAACATACCAATGGTTCCCAGTTTTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114857-NKTR:NM_005385:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0016016=Pro_isomerase=FE(16.0=100),PF132061=VSG_B=PD(19.7=75.0)
A:
NA
C2:
PF0016016=Pro_isomerase=FE(17.5=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
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)