HsaINT0073582 @ hg38
Intron Retention
Gene
ENSG00000170627 | GTSF1
Description
gametocyte specific factor 1 [Source:HGNC Symbol;Acc:HGNC:26565]
Coordinates
chr12:54460377-54462172:-
Coord C1 exon
chr12:54462109-54462172
Coord A exon
chr12:54460472-54462108
Coord C2 exon
chr12:54460377-54460471
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:ENST00000305879:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.424
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
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