HsaINT0135712 @ hg19
Intron Retention
Gene
ENSG00000172053 | QARS
Description
glutaminyl-tRNA synthetase [Source:HGNC Symbol;Acc:9751]
Coordinates
chr3:49133365-49135550:-
Coord C1 exon
chr3:49135425-49135550
Coord A exon
chr3:49133513-49135424
Coord C2 exon
chr3:49133365-49133512
Length
1912 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
CTTTTCCCTCTGCCCTCCAGCTT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GCATCACTACACGTGGTGGATGCAGCATTAGTGGACTGCTCTGTGGCCCTGGCAAAACCCTTCGACAAGTTCCAGTTTGAGCGTCTTGGATATTTCTCCGTGGATCCAGACAGCCATCAGGGAAAG
Seq A exon
GTGCTTGACTTTACTCACCTGCCCTCATCTGCAGCAGTGACAGTGGCTGCCGTTCATTGTGCCAAGTGCTCTGCATACATTCCCTTAGTTAATCCTCACCACCTGAGGGAGTTGGTATTCATATTCTACTAGTGAGGAAACTGGCACTGAGGATAACTCCAGGCACAAAATTTTGTATGAAGGCTGCCTTTTTTTTTGAGACAGTCTTGCACTGTCGCCCGGGGCTGGAGTGCAATGGCACCATCTCGGCTCACTGCAACCTCTGCCTCCCAGGTTCAAGTGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCCTGCCACCACACCCGGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGATGGTCTCGAATTCCTGACTTCATGATCTGCCCGCCTCGGCCTCCCAAAGTGCTGGGATCACAGTCATGAGCCACTGCACCCGACCTCTTTTTTTTTTTTAATTATTATTTTTTGAGGCAGGGCATGGTGGCTCACACTTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGCTGATCACCAGAGGTCAGGGCTTACCACCAGAGGTCAGGAGTTCGAGACCACCCTGGCCAACATGGTGAAACACCCGAAAGATATTATTTTTAATATCTTTCGTTAAGGCAGCTAATAACCTTTCTTTTTATTTATTTTAGAGACGGGGTCTTACTCTTGCCCAGGGTGGTGTGAAGTGGTGCAATCATAGCTCACTGTGGCCTCAAACTACTGGGCTCAAGCTATTCTCCTGCCTTAGCTGAGACTACATGTGCACACTACCATGCCTGGCTAATTTTAAAACTTTTTGTAGAGGCAAGTTCTCACTATGTTGCCCAGGTTGGTCTTGAATTACTGGCTTCAAGCAGTCCTCCTGTCTCAGCCTCCTAGAGTGCTGGGATTATAGGCATGAGCCACTGTGCCCAGCCACCCTGCCATCCTTTTTTTTTTTTTTTTCTTTTTTTGAAACAGTATCTCGCCCTGTTGCCCAGGCTGGAGTACAGTGGCACGATCTCGGCCCACTGCAACCTCCGCCTCCCAGGCTCAAGCCATTCTCCTGCCTCAGCCTTCCAAGTAGCTGGGATTACAGGCACATGCTACCACGCCCGGCAAATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACATGTCGCCCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCACTGCAAGCTCTGCCTCCCGGGTTCACGCCATTCTCCCGCCTCAGCCTCCCAAATAGCTGGGACTACAGGCGCCCGCCACCACTCCCAGCTAATTTTTTCTATTTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGATCTCATGATCCGCCTGCCTCGGCCTCCCAGAGTGCTGGGATTACAGGCGTGAGCCACTGCGCCTGGCCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTTGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGATTATCTGCCTGTCTCAGCCTCCCAAAGTGCTGAGATTACAGGCGTGAGCCACTGCACCAGCCCACCCTGTCTTTCTTACTCCTTAAAGTAGGGGGCAAACATGGTGGTTGTTATAATCCATATAAAACTATACCCTGGACCCCCACGGTGGTTGTTATGGTCCATATAATACTATAGCCTAGAGCCCCATTCAGTCCCTTACCCAAAGTCACAAAGTTATTGAGGACCCGGGCCTCCTGACCCTTAGTCCCTCGGCTTCTTTGGCTTAAGAAGGATGTTAGGGGGAGGTGTCTGTGGTGAAACCTGCCCAGGCCTCCCTGGCCTTGTTCTGGGTTGGTGGTCATCCTTTTCCCTCTGCCCTCCAG
Seq C2 exon
CTTGTCTTTAACCGAACTGTCACACTGAAGGAAGACCCAGGAAAGGTGTGAGCTGGAAGCACTGAACCTACCTCATCCTCCTGGAGGGTGTGGCTACCCTCGCCACCCCAAATTCCATGTCAATAAAGAACAGCTAAATTCTCCTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172053-QARS:NM_005051:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0395013=tRNA-synt_1c_C=PD(18.1=81.0)
A:
NA
C2:
PF0395013=tRNA-synt_1c_C=PD(4.3=41.2)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACTACACGTGGTGGATGC
R:
TTTAGCTGTTCTTTATTGACATGGA
Band lengths:
262-2174
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)