HsaINT0141894 @ hg19
Intron Retention
Gene
ENSG00000111880 | RNGTT
Description
RNA guanylyltransferase and 5'-phosphatase [Source:HGNC Symbol;Acc:10073]
Coordinates
chr6:89614434-89616159:-
Coord C1 exon
chr6:89616084-89616159
Coord A exon
chr6:89614675-89616083
Coord C2 exon
chr6:89614434-89614674
Length
1409 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
ATGGTGTTTGTTTCCTATAGTAT
3' ss Score
7.24
Exon sequences
Seq C1 exon
GTGTTCATTGTACTCATGGCTTCAATCGCACTGGTTTCCTCATATGTGCCTTTTTGGTGGAGAAAATGGATTGGAG
Seq A exon
GTATTTGTATCTTGTTATAATGGAAGATGTATTTTGTAATAAAAAATTTTATTGATATTTTAGTTGCAGAATTTTGTATTGTCAAGTTTTTGGTGAACTCATGATTAATGTAATTTGAACTGCTTTTCATTTTAGATATGGTTAATCTTTATACTACCATTACTTGGTGTGTGTGTGTATGTGTGTATGTGTATATATGTATGTTTTGTTTTGTTCTTTGAGACAAGGTTTCCTCTGTCATCCAGGCTGGAGTGTAGTGGTGTGATCATGGCTCATTGCAGCATTCACCTCTTGGGATCAAGCAATCCTCCCGCCTCAGCCTCTCAAGTAGCTGGGACCACAAGTATGTGCCACCCATGCCTGGCTAATTTTTTCTTTTTTGTCTAGTGAGGAGGTCTCCATATGTTACCCAGGCTGATCTTGAATTCCTGGGCTAAAGTTATCTTCCACCCTTGGCCTCCCAAAATGTTGGGATTACAGGCATGAGCCACCACACCCAGCCAGGTGTTTTGCATTAACCAGCAAATCACTTTGAGTGCTTATGAATTTCATAAACTGTATATTCACTTTTTCAGATTTTTTTCACCTCTTACAGAATTATCAGAGACAGATTCTTCCAATATTTTGTATTTTAGTATTTTTGGGAGAGTGTTACTCCATTTAAGCCAATCAACATGTCTTTATTGAGCATCTGTTATTTTTGAAGTGTGTTTTTAGATCCTGAGAGATTACGACTTTAGTACCCAATATTCTTAAGAGAATATATTACTAACTGAATTTTCTTGTTGACTGAGGGAGCATCATTATTTATGTTTACAAAGATTTTCACATAGTAGGTCCTTTTTTGAATATAATCAGTTGAAGTACACATATGATTTTGAATTTTGCAGTATGCATTGTTGGTGGTTCTGTACTGCATGTACTTTCTAGCTCTGACCATTCAGATGCTCTCCACAATGATCTCAGTTTCCTATGTCAGATTTAGCCTATGCTTATCCTCTCTTTGATGATCTAGACTCTTAGTGCCTGGATCTGTTGAAAGTTCCTGTAAAATCAATATGCTTTTACTTTGCTCACATTGTTGTTTTTTTGACTGATGTTTTGCTGCAGAGTCAGACCTCAACCTTCAAGACTAAATTCTTCACAGACCCTATCTAGGTCTCTACTATATACTCATAGCAATTTATTTTTAGAATTTCAGAATTTTCTGAATACCTTATATTAAAACCTTTTCAGAATGAATGTGTCCCTTAATAGATTGAATGACTTGAGGGTGAGGATTGTGATTTGCCCATTTTATAAACTTCTGTTGTACTTTATATGGAGCCTTGAATATAATAAGTGAGTTTTTGATAAGCCTGCATAAATAGAGGATAGCGAGGAAATTGCATGGTGTTTGTTTCCTATAG
Seq C2 exon
TATCGAAGCAGCAGTTGCTACTTTTGCCCAAGCCAGACCACCAGGAATCTACAAGGGTGATTATTTGAAGGAACTTTTTCGTCGGTATGGTGACATAGAGGAAGCACCACCCCCACCTCTATTGCCAGATTGGTGTTTTGAGGATGATGAAGACGAAGATGAGGATGAGGATGGAAAGAAGGAATCAGAACCCGGGTCAAGTGCTTCTTTTGGCAAAAGGAGAAAAGAACGGTTAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000111880-RNGTT:NM_003800:5
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=0.370
Domain overlap (PFAM):
C1:
PF0078215=DSPc=FE(18.7=100)
A:
NA
C2:
PF0078215=DSPc=PD(23.1=38.3)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCATTGTACTCATGGCTTCA
R:
AACCGTTCTTTTCTCCTTTTGCC
Band lengths:
310-1719
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)