HsaINT0073582 @ hg19
Intron Retention
Gene
ENSG00000170627 | GTSF1
Description
gametocyte specific factor 1 [Source:HGNC Symbol;Acc:26565]
Coordinates
chr12:54854161-54855956:-
Coord C1 exon
chr12:54855893-54855956
Coord A exon
chr12:54854256-54855892
Coord C2 exon
chr12:54854161-54854255
Length
1637 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CCAAATTCATCTTTTTGCAGCCC
3' ss Score
6.86
Exon sequences
Seq C1 exon
ATTTGTGGGAGCAGACCAGCACCCCATTTGTCTGGGGCACAACTCACTACTCTGACAACAACAG
Seq A exon
GTAAATGAAATAGTCTTATCCCAGCATTGTCTCCCAAAATCAGCGTGTTCTGTTACCAAGAGAAGCCACCGGAGCATGAATTGACCACTTTCTTTAACGATGTTCCTTGATGGTAGTTTAGTCTAGATATTGTTTTGGCATTTTTTCATATTTATTCCTTGATTCAAAAAGGTCATGTGCTTTGTGCCAATCATAAGGGATACAAAAATACATTATCGTTTAGCAAGGGAAACAGTAGCCCCAGACTTTCATGTGTCTTAGTTATGTTTTTTGCTAGGTTTACATTATTTTAATGCTTTGAAAAAATTCTCCCACTATACCACTTGGATCATTTTTACTTTAGGTAACTAGTGTATAGGAAAAAGCAGTCTTAAAAATTCTTTATTTGAGATTGGAAAATCCAGAGTACCTATTAGGAAAGAATATGCATCTCTTCTTCCCACTGATTTTGTATCTGATTTATTTTTTTAGAGACAGGGACTCTGTCAACCAGGCTGGAGTGTAATGGCATGATCATGGCTCACTGCAGGCTCTGCCTCCTGGGCTCAAGCGATCCCCCTGGGCCTCTCAAATAGCAAGAACTATAGGGATCCACCACCACACCTAGCTAATTCTTTATTTTTGCCCAGGCTGGTCTCAAACTTCTGGCCTCAAGTGATCCTCCCCCCTCTGCCTCCCAAAGTGTTGCTCATGCCCAGCTCTAATTGAAAACTAGATGATTTCTGGCCAGGCACAGAGTAGCTCATACCTGGAGGCCAAGGTGGGAGGATCGCTGAGGCCAGGAGTTCAAGATCAACATGAGTAACACAGTAAGATCCTGTCTCTACAAAAAAATTAAAAAAAAAAAATAAGCTGGGCATGGTGGTGGATGCCTATAGTCTCAGCTACTTGGGAAGTTGAGACCAGAGGATCATTTAAGCCCAGGAGGTCGAGGCTGCAGTGAGCCATGATCATGCCACTGCACTCCAGCCTGGGTGACAGAAAGAGTCCTTGTCCAAAATAAAATAAAAATGAATGAAGCTATTTCTCATTAACACCAATACTCAAACCTTGGAAGATCAAGTTTCAAACCCAAATGAGAATATTTCTGGTTTAGGAAATGAAGGAATAAGATGCTAGACTTCACTTTTTTCCCCAAACAGAATGCTTGTCAAATTTTTACTTTTTAACTACTGAGAACAGTAAATAATTTTAAGTGTATACTATTTTATGTGCACTAAGATAGAAAAACTTAAAATGAATTCCGTTGGCTACAACTTTTAATTTTACCTCAGTTGAAGATTTGCTGCTTTTGGTTTGGTTGCCTTAGCACTTTATTTTATCTCTTACGTTTATTGAGTGAGTTGATGAGCCTGTCATACAGCTGAACAGTAGATGGCATTGCTGTTTATCTCAATTTCTAGAAAATGAAAATGGTTAGACCCATCTTAATGTCTATACAGAACAGGGAGCTTTCCAGAGAAGTAAGTGGTAATCATTCTAATTGCCGGAACGTTTTGATGGAAATGTGTTTACATTTCAGATGAATGTAGGTTGTTGTTTTTCCCCAAATTACAAAAAACACATTTTGATTATCTTACGTGTGCCTGCTTGAATGATACTGATCTGCCGACATAGCCAAATTCATCTTTTTGCAG
Seq C2 exon
CCCTGCGAGCAACATAGTTACAGAACATAAGAATAACCTGGCTTCAGGCATGCGAGTTCCCAAATCTCTGCCGTATGTTCTGCCATGGAAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170627-GTSF1:NM_144594:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.227 A=NA C2=0.485
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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)