HsaINT0113806 @ hg19
Intron Retention
Gene
ENSG00000114857 | NKTR
Description
natural killer-tumor recognition sequence [Source:HGNC Symbol;Acc:7833]
Coordinates
chr3:42685394-42690233:+
Coord C1 exon
chr3:42685394-42685495
Coord A exon
chr3:42685496-42687379
Coord C2 exon
chr3:42687380-42690233
Length
1884 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
ATTTTGTTTTGTTATTACAGGAG
3' ss Score
7.31
Exon sequences
Seq C1 exon
GTCCTACACCTACGATAGCTACTATAGCAGGAGTCGGAGTCGAAGTAGAAGCCAGAGAAGTGACAGTTACCACCGAGGCAGAAGTTATAATCGGCGGTCCAG
Seq A exon
GTGGGTCTCTCTCCTTTATCGTCCTTTATCGCACTGTAGGCCACGGTGGGCACTTGATGTGGGAGGGTGATGGGCTGCTAGTGGAAGAGAAAGTGGTATAATCTTCCAAGGACAGAAATACTTCTTCCTTTAAATCTGAACAACCCACAAGCAGCCACTAAAAGTGGCTTTTATATTAAGAGTTGCCAGGTAATATTTGTTGGTTATTATTAATGTTTGAATCTAAAATGGGTTTCTAAATATTCACATATCTTGGACAGACCTTTCTTTTGGAAAGAAAGAAGGCCACCCAAACCATGGCCACTTGCTTAAATAGAACCACTTGCTAGCAGTAGCCAGTTTCTCATTTTTTTTAAATAAAAAAATACATAATATAATTTGCTTCAGCAGCAGGATTGAGGTTTATATGTTGTCAATTATTTAGTAAAATACATTTTTTATGTATTATATGTATTATGTTTAACATATTTTGGCTTCTGCAAAAGTCTTTATGTTAACTTTTGTACTGTCCTTTTCTGGTGGCTTCTGGTCTTGCCTTCCCCTGTCCATTGCAACTGCAATGATGCTTGTAAATATCAGTCTGATCTGGATACTCCCTTGCTTGAAACTCTTCAAGGACTCCCTGCTGCTTTCATGATCAGGTCCAGCCTCCTCAGCACCAACTCCAGCTCACACTCTTTCTGGCTTCCCTCCTTTAAAGTGTTGGGACTTTTCCTTCTGCCTGGAGACACACGTGTCCTCTTCACCATCTCCCCTTTTGCCACTTGAAATGGCCAGTTCCCATCTACCCTGCAGATCTCCACTGTCCCTGGGCAGCCCTCCCTGATGCCTAATCCTAGGATACAGTCCCTCCCATGTGCCTCTAAGACAGCCCTTTGCTCCTACTGTGGCTCCCCTTGCTCCTAAATTACTTGTCTTGCTGACTATTCTATTCTGTCCTTGAACCCCAGAGAACTATACTTGGTTTTGTGTCTTTGTGTGTGTGTGTGTGTGTTCCCAGCATCTTGCAAAATGCCTGGCTCACAGTGAATGTTTTTCAAAATAACTGAATGGGACCCATGACCAGGTCCTCTTGACTCAATATCCCAGTGGTCCTGTTCATGCCCAGGGCCACCCCCACCCCTCATTGGACCCCATTTTGGTTTCCATTCCTTGAGTGAAACTATTTGTGCACCTTTTCCCCATTACTTTTCTCAGGTAATCTATTCAAATATTGATACTCATTTTGGGTAATATGGGGAAACTATTCTGCTCATTGGTTTTTTGTTTTTGTGGTCCCAGCATTTGCATGAATGAATTTCACACAAATTTCCTAAGATGTGATGTTTCTTTATTTTATCTTAATCTTGACATTACTACAACTTGTCATTTAAAACAGCTTCAAAAAGTCCATAGTGTGAGTCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCGTCTGAGGTCAGGAGTTGAAGACCAGCCTGGCCAACATAGTGAAACCCCGTCTCTACTAAATAAAAAAAATTAGCTGGGCGTGGTGGCGGGCACCTGTAATTGCAGCTACTAGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGTTGAGAGCATGCCGTTGCACTCCAACCTGGGCAAAAAGAGTGAAACTCCATCTCAAAAAGAAAAAGAAAAGTCCATGGTGTTGCCATAGTCAGTACCCTACCTCTGTGTTATGCTGCATCAATAGTGCATCAGTTATATGAGTGGCTTGAAAACACTATTGATGTTTTCAAGCCACTCATATAAAAAACAAGCTATAAGAGGAATTCAAAGATTTTACAGTTACAAGATTTTTATATATTTTGTTTTGTTATTACAG
Seq C2 exon
GAGTTGTAGATCTTATGGCTCTGACAGTGAAAGTGACCGAAGTTACTCTCATCACCGGAGCCCCAGTGAGAGCAGCAGATACAGTTGAAAACGTCCGGATACAAATTATATCTTATTTGTAAATATCTGGCAACTTAGCTTAAGAAATGTAATGACAGTCTGTTGTTCTATTTCAATATCAGAGGTGAATTTCAAAAATAGACACTTCTTAATTGTTACTGGTTCATTTACATGTGGGGAGAAGAATTTAAAATACAGATATGTCTCCTAAAAATATTTTTATGCCACATTTTACAGTAGCCAACTATGGAAATGAATTTCATTTTCTTGAATCAAGAAATCGTGAAATTTATCTATGTATAATTTGCAATATTATTTTAAGTCTATTTCACTCTATCTTACGTATCCCTTAGAATACAGATTCTTTTTGCCTGTTTTTCCAGTTTTAGCATATATGCTGCCAAGCATAGAACTGTGAAGGAGAACTGTTAAAGGCGGCCAAATATTTATATACTGATTACATAGAGTCTTGTACATATGTGCTCTAAAAACAAACCACCCAGAATTGATACTGTTGGTAACCAGGAGTATAAGGCAGTGGCTCTGGGGTTCTTAATTCATTCCTAACTTCTTTGATACTTCACAGGATTAGGAAAGTGGTCATCATACATCCCACACAGTCTGTATTACTTCAGGCTTGTGGGCAAGGTTAGGAAGAATCAATCAGCCTTAACTATAAATACCTGCACTGTCTCTGAGGACTTACTATTTTATGTTCTTTTTAATCAATACCGATCAGAAGTTTAGGTTATAAAAACAATTCTACTTCATGCTTTGGTGCTTGGTAATTTTTGGTGCGTCTTTAAGCATTACTCTTATATATCATATATTAAAATACCATAAAAATGAAATTCAGACAAAATCACTGGCACCAAAAATGGTTTATTCTGAGCTGTCTTCACTTTGACTATTTGGGGGGCTTCTCTCAAGTACAGATGTGGGTTGGGGTCCCCTGGAGCAGGCAGGATTGGCAGTAAGAGATATTGGCCACTCAAGTCTACTGTGTGTGTGTGCCTCTGGAAGAGTGAAGAATGGACTTCAAAAGTAACATCAAAAATCTAACTGCCACCATCCTGGAGACATTTTGCAGGGCTTTCCTTTCAAGTCTTTCAAGTACAGGATATTACCACAACAGCAGCTGAACTGTTGTAACCAGCATGTTTTTCCTATTTCCACTGTGACCTGCAGCTGACTCAAAGCCTTGCGTGACCTGACCCAGGTGCAAGAGACAGGGGAAGAGGGATAGAGGGTATAGCATAAATTACATATTTTCATGGCTTTGGGTGGTTCCTCCAAAAATAATTGGACCTGTAAAAACTAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTTTTTTTTTTTAATCTTTACTTTGAATTTGTTCCCCAAGTGTACTTAATCACCTTAGTGCCAGTTTAATCCAGTTATGCAGAAGAAATTCATATTGGTTGCCTGATGTAGAGCTCAGCACCACCCTACCACAGGCCTTGTCTGGTGTATTTGGGAAGTGGAAAAGAGCCCTCAGTTGGAGGGAGCTGACAACCCTTGGTGGAGGGAGGGTGCCCTTGAATGTATTAAAACTATCACCCAAAGAAGGTATGAAAACAGGGTAAGGTGGTCAGTTGTTTGCCAGGTCAATAGACAGAAAGTACATTAGAAAACAGGACTTAGGCCAAACAAACAATACTGGATACTGAATACAAAACAGTATGATTTATATTAAAGGTTTCCAAAGGTTGCCTGCAAAGGAGAATATTACTACTAGTCAGCAGGAAAAAAATGCATTCAGAACCCAAGCAGAAACTGCCAAATGTAATTAGGTTAAGAAAAGTTACCCTTGGGCAGTGTATTAGTTTTCTATTGCTGTGTGACAAATTACCCCAAATTTAGCAGTTTAAAAAACAATACCCATAGCAGTTCTGTAGCTCATGAGTCTGGCACAGTGTGGCTGGATTCTCTGCTCAGGGTCTTAAAGGCTGAAATAAGGGTTGGCAGGACAACATTCCTTCATGGAGGCTCTGGGGAAGAATCTGCTTCTAAGTTCATTCAGGTTGTTGGCGGAATTCAGTTCTTTGCTGGCTCTCAGCTGGAGGCCCCTCTCTCACCTCAAGGCTGCCTGCATTCCTTCTTATGTGGTCCCCTCCAGCTTCAAACCAGCCTTCCTGCTCTTTCTCATGCTTCATATCTCTCTCCCGTCCTCCTGTTTTAGGGGCATATGATTAGCTCAAGCCCACAGATATATTTTAAGGTTGATTGTGCGATAGAACATAATTGCAGGAGTACTGTCTCATCTCATCATATTCACGGGTTCTGGAGATTAGCTCATTGAAAGTGGGAGGGGCATTTTCAAATTCTGCCTACCACAGGCAATAACTGCCCATCTCAGCTGTAGGTGGAATTTTTACCCAGAAAAGATAGGCCCTAGAAGCCTCATTTCTTTTCTCCATGGAAAAGGACAGCCCTCTGCTGCAGCGTTCAACTTGTGTGTTTACTGACAGAGTGAACTACAGAAATAGCTTTTCTTCCTAAAGGGGATTGTTCTACATTTTGAAGTTATTTTTTAATAAAATTGAATTATGTTGTGTATTGTGCTTCTTAATAGGAAATGCATTATTGGACTGTTTTTGTAACATCCTGTTTATTGCAAATAGCTAGTATCGTTCAAAAACTGTATAAAATACTTTTGTACATATTAGCAATGTCTAATTTGTATACACTTCAGTTAAATTTCCCTAAAACTTGAAAGGGGACCTTGTAGAAATTAAAATATATACTTAGTCTAAGTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114857-NKTR:NM_005385:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTACCACCGAGGCAGAAGT
R:
AGTTGGCTACTGTAAAATGTGGCA
Band lengths:
344-2228
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)