HsaINT0059104 @ hg19
Intron Retention
Gene
ENSG00000088926 | F11
Description
coagulation factor XI [Source:HGNC Symbol;Acc:3529]
Coordinates
chr4:187192763-187194331:+
Coord C1 exon
chr4:187192763-187192925
Coord A exon
chr4:187192926-187194224
Coord C2 exon
chr4:187194225-187194331
Length
1299 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
3' ss Seq
TGTATTTTTTAAAAAAACAGGTT
3' ss Score
4.58
Exon sequences
Seq C1 exon
AATGTGTGACTCAGTTGTTGAAGGACACCTGCTTTGAAGGAGGGGACATTACTACGGTCTTCACACCAAGCGCCAAGTACTGCCAGGTAGTCTGCACTTACCACCCAAGATGTTTACTCTTCACTTTCACGGCGGAATCACCATCTGAGGATCCCACCCGATG
Seq A exon
GTAAATGCTTATGTTTCTACATCGAGGAGACAGATTTTTAAAGGGAGATTGCTATTCTTAACACATTTCCATCTAACATTTTATAAAATTTAACATTAACAACTGGAAGATAAATTGTCTTTCAGTTGAAATATTGTTACAGAAAGAAGTGATGGTGTTTACGCAATTTAGAAAAGAATAAATATGCCTCCAAGTGTAGACTTTCCAGCCTCTCCTATAGTCTCATATTAATGGTATGTTTCTTCTGTTTGTCTCAATTTTTACACTTCTTAAACATTTCACACTTTGCTTTTCTATCGATTATTAATTTTTGTCGTGCTTCTCAACAAACTGGAACTTCTCCCAACTATTTTATTAGAAAAAAATAAAATATTTAAAAAGAAAATTTGAAAAAAAGTACAGTACAGTGATCCCCCTGCCACCACCAAAACCGCAATGTTTGCTATATTTGTACAGCAATATACAATATACAATACCTATATTTGTATACATGTTTAACCGTTTGAAATAATTTTAAAACATGACACTTTACCCCTAAATACTTCAGCATGCACTATCCTACACAAAAGACATACGAAATTTAACAAGAATTCCTTTATATTATTTCAGTTTTCCCTCAAATATAATTTATAGTAATTAACCAGAATCTTACCAAGAGTCACTCACTGCATTGGGTGGTTTGTCAGGTTTAAAACATTTTAAACAGTCCACCAACCATTTGTATTCCCATCCTGAGCTTGAAAATTTAATAATAAGCCTTTCTGTAGAATTAAGTTTTCAACATCTTTATTATTGCTACATTCACAGGCATTTATGTAGCACCCAGAACTTATAAAATTTACTATTCCAGAACCTAGAGCAGGGATTGGCAAATGTCTTCTTAATAACGCAGAGTAAATATGTTAGGCTTTGTGGGCAAAACCCACAGTAAAGCCAAGGATATTATTTAAGTATTTATGTCACCACTTAAAATGTAACAATTTGAAAATATAAAAATCATTTTGTATAGCTAACAGGCTAAACAGAAACACACAGATTTTTGGTTGCATTTTACCAACAGGTCCTAGTTGACACATTCCTGTTTGTTCCTATTAGAAAGGAGTATTACATGCAGTCTCTTAAGTGTAGGGATATTGAAGTAAAAAACAAACTCAGAATCTTGCTAAGAAAATATTTGTTTTGGCATGAGATAAAGTAGTTTGTTTCCTTCTTTTTGGCTTTCTGTGTGCTGACTTTTAAGATCCATTATTTTAAAAACATAAATTCCTATTCATTAATATGTATTTTTTAAAAAAACAG
Seq C2 exon
GTTTACTTGTGTCCTGAAAGACAGTGTTACAGAAACACTGCCAAGAGTGAATAGGACAGCAGCGATTTCTGGGTATTCTTTCAAGCAATGCTCACACCAAATAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088926-F11:NM_000128:3
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=PU(63.1=96.4)
A:
NA
C2:
PF0002421=PAN_1=PD(35.7=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTGTGACTCAGTTGTTGAAGGA
R:
CGCTTATTTGGTGTGAGCATTGC
Band lengths:
270-1569
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)