HsaINT0148688 @ hg19
Intron Retention
Gene
ENSG00000116560 | SFPQ
Description
splicing factor proline/glutamine-rich [Source:HGNC Symbol;Acc:10774]
Coordinates
chr1:35649201-35652723:-
Coord C1 exon
chr1:35652602-35652723
Coord A exon
chr1:35650195-35652601
Coord C2 exon
chr1:35649201-35650194
Length
2407 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
GTTAATTACTGTTCCAATAGCGT
3' ss Score
4.07
Exon sequences
Seq C1 exon
ATCCCTATGGTTCAGGAGGCCAGAAATTTCCACCTCTAGGAGGTGGTGGTGGCATAGGTTATGAAGCTAATCCTGGCGTTCCACCAGCAACCATGAGTGGTTCCATGATGGGAAGTGACATG
Seq A exon
GTAATGTATCCTGTGGGACGTAGTACCAAGGAAATTCTCATTTTCACAACTTAGGTGTGTTTGTTTTGTTTTGTTTTGTTTTTTTAAGTAGGTGACTGGACCTCTTTTAGTTTCCCCTACCAATTTCATACATAAATATGTAATATTGAGGAATACTTTGGCAACATAGAAGAACTCGGTGTGTGGTAACCTAAACAGATAACGGTTGCCAACAAGGAGTCAATGCTGTTAGTATTATGTGGAATTACCTTTGGCAATAAGTAGATTTAGGTGCTTTTGAACTCTAGTGCATGGCAAATCCAAATTCTAGATGCTAGATAATGTATCTGATTATTCTACATCCAAGTGAGAATAATCAAATGGCAAACTCATTCTTTAAGCTGGTATTTGCCATAAGTAGGAATCAGACTTGTAGTTTGAAGCTTTAGGCACGTTTTAGTGATGTGTAGGACTTTGACCTATATTTGGTGTGGCTTCTATCCTATGAAAAGGGAATTGAGTGTTTTGACTCGTCGTTTCCCACCTGTTGGGCCTGTCTGTAGGTATACCTTCTAAAATCAACTGACATCTCCATTTTGCTACAGAGTAGCAAAAATCAACAATTTTTAAGCATACTAATGGTGTGCATTTGATCTGAACCTTCTTGATGCTATCATGTTTCAGCTGTGAATATAGCCTGTCAGATGCTTAGAACAATCAGTTGAACTGGTATGAGTGGCTGCATTAGGGCTTTACAAATCGTTAGGACTGAATTTTGGTGGGTTTAGAGAGTGCATTTTTATAGCTGAGTTGAATGTGATGAGTTCACTACAGGCTTTTGGCAAAGGAGGGGAGCTGCAGTGAGTAGCTCATAAGATTCATTTTATAAATAGAAACATAAGGATTTTGTATAAGGCCTCACCTGTTTATAATCTACCTAAGACTTTTTGGGAATTAAAGTTAGAATTATAAATGGCTGGTTGGGTAAAATGTAATACTATGGGCTTTCTTTAGATTTTTCAGAGTATGTGGGTAACATTTTGGTTTATATTCTTCCTAAAGACAGATTGTTAGGTAATGTGTAAAATCTAATTTGACCTTATGTTCTCACAATTAAAGGTTTATATTCTAGATAACAGGTAGCTGATAGCTCCTGGGTTCTCAGCTGGTGTAATTAACATAATTATGAAAGCCCCAACTTTTTCTTTTTTTTAAGTTCTTAGAGGTAGAACACAGAACAATGAGCCAAAAACCCTGTAATTTATAAGATTTTGAAAAACAAAGGATAAAAGTTTAGTCATGTTGAGTAGCTCAATAGTATTTTGTTTAAAAGAATGTTGAAATTGTGTATAGGAACAGTTAAACCCTGATGCCCTTTTAGTTTTTTATTTGGAGTAATACTCTTAGTAACTGGTCTATTATAAATGGAATGAGAAAAAGTGTAGGCTGCTGTGTTTGCATACCTGAGGGGTCTGCTATTTAGGCACATATGTTTCTATTGAAAACTTCTATCTCCAGAATTACCTAAAACTAGATGGGAATAGTGAAGTCACTCACTGCTTTATTGCAGTTACTTTAGCTTCGTGTTTCACTGTTCGGGAAGTGTCTAAAACATGGAATTACAGCAAAGTGTCTGCACTTTTCAAAGACCTAAGGGAAAAGATGGACTGATGAAGGTGGGTGGGGTTTGTTCATTTAGTTTGCAACAATATAGAATAGTACTGAGAACGTAATTGTCTCTGGTTATATAGTGATGGCTCGGAAGGTAGTGTGCCTGTGAGAATTTGGCAACATAAGTTTTTTTGATCAAGTTACTGTGCCGGTTAAGTGACTAAATCTATAGTCTTATGCTTTTTCTTTTTGTAGTCTGGTAGCATTTTATTAAAACTTTCAACCTTTTAAGATTTCTGCAACTTAGCAGATGTGTCTTAAGATCTTGAAAAGCACAAGGTTTCTTAAGCAGCACATGCCACTAACTGGTGAGTAGGTCTTTGTCACTTCATTGAGTGAATTGAATCTCTGGTTGGGCTTGTTAGGCTTACTTGGAAATTAAATTTCCGTTCAGACGTTGAAAGTGAGAGTTTGCAAGTTTTTCAGTGGGTTAATCTGATGTGAAATTTCTTAGAACTCATTTTGGAATGGATTTTCACATCTGCACTAATTCTTAAATTTTTTAGCACTACAGGGAAGATCTGTTCTTTGAAACAGGTGTATGAGAATGGCTCAAGTGGGAACATACCACAAGGCATGTATTACCGTAAACTAATTTTCAAATTACCCTTTTTTCCTTTCTATGTTCCCGGTACCTGTGGATCGACTCATTGGTGATTGTATCGACGAACGTTGACTACGGAACCTTCTAAAATATTTACTTAACACACATGGACATCAACTACTTATAATGAACTGTTAATTACTGTTCCAATAG
Seq C2 exon
CGTACTGAGCGCTTTGGGCAGGGAGGTGCGGGGCCTGTGGGTGGACAGGGTCCTAGAGGAATGGGGCCTGGAACTCCAGCAGGATATGGTAGAGGGAGAGAAGAGTACGAAGGCCCAAACAAAAAACCCCGATTTTAGATGTGATATTTAGGCTTTCATTCCAGTTTGTTTTGTTTTTTTGTTTAGATACCAATCTTTTAAATTCTTGCATTTTAGTAAGAAAGCTATCTTTTTATGGATGTTAGCAGTTTATTGACCTAATATTTGTAAATGGTCTGTTTGGGCAGGTAAAATTATGTAATGCAGTGTTTGGAACAGGAGAATTTTTTTTTCCTTTTTATTTCTTTATTTTTTCTTTTTTACTGTATAATGTCCCTCAAGTTTATGGCAGTGTACCTTGTGCCACTGAATTTCCAAAGTGTACCAATTTTTTTTTTTTTACTGTGCTTCAAATAAATAGAAAAATAGTTATAATATTGATCTTCAACTTTGCCATTCATGCTTCTATGCATATTAGGCTACGTATTCCACATTGAAAGCATGAGAGTGTCTAGGCCTTTGAATGGCATATGCCATTTCTGGGAAATGCATCTGGAGGCTAAGTATTGCTTTCTACAAATAATTGCCCCCTTTGTTTTAAAAAGAAGAAATGCATATTGAAGTAGTTTGATGATTTGTTTGGCATATAGGAAGCACGCTGGTGCTAAGTATTTTTTAAATGGTTATGTAAGCAAAGCTGAACTGTAAATCTTCAGGAATATGTATTAAGATTGTGGAATGGGTGTAAGACAATTGGTAGGGGGTGAAAGTGGGTTTGATTAAATGGATCTTTTATGGCCCTATGATCTATCCTTTACTTGAAAGCTTTTGAAAAGTGGAAAGGTCATTTTGTTGCATTTCCCCATTTCTTGTTTTTAAAAGACCAACAAATCTCAAGCCCTATAAATGGCTTGTATTGAACTTTTACATTTGAATTAAAGATGTTAAACATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116560-SFPQ:NM_005066:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.994 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
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
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)