HsaINT0059107 @ hg19
Intron Retention
Gene
ENSG00000088926 | F11
Description
coagulation factor XI [Source:HGNC Symbol;Acc:3529]
Coordinates
chr4:187196941-187197544:+
Coord C1 exon
chr4:187196941-187197050
Coord A exon
chr4:187197051-187197384
Coord C2 exon
chr4:187197385-187197544
Length
334 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATT
5' ss Score
6.19
3' ss Seq
ATAGTTCTTCCGTCGCGCAGCTT
3' ss Score
4.56
Exon sequences
Seq C1 exon
TAACATTTGTCTACTGAAGCACACCCAAACAGGGACACCAACCAGAATAACGAAGCTCGATAAAGTGGTGTCTGGATTTTCACTGAAATCCTGTGCACTTTCTAATCTGG
Seq A exon
GTAATTATCGACTTCTTGATGATGTAATTCAACCATTAAATATGCTGATGATTACAGTAGATCTCACTCAGGATACCAGCTTATGCTCACGATGAAACGGACCCAAAGATCTTTACCTTCTTCATGTGATAGATTTCATCATGTCCTATACAGTTAGATCCTCTATTTAAATTTCCAGTTTAAAATAATCATGCCATTTTCTTCTAAATAAAAAAAAATTAAAAGATCTTGGGATACACTTAAATTTTTTAATATGGAATTTACACATACTGTGACCGGAATTTTCCTGATAGCTGGTGAATTGAGTCCCTGACATAGTTCTTCCGTCGCGCAG
Seq C2 exon
CTTGTATTAGGGACATTTTCCCTAATACGGTGTTTGCAGACAGCAACATCGACAGTGTCATGGCTCCCGATGCTTTTGTCTGTGGCCGAATCTGCACTCATCATCCCGGTTGCTTGTTTTTTACCTTCTTTTCCCAGGAATGGCCCAAAGAATCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088926-F11:NM_000128:6
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=0.000
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(36.9=81.6)
A:
NA
C2:
PF0002421=PAN_1=PU(61.9=96.3)
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:
TAACATTTGTCTACTGAAGCACACCC
R:
CTTTGAGATTCTTTGGGCCATTCC
Band lengths:
270-604
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
- 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)