HsaINT0059100 @ hg19
Intron Retention
Gene
ENSG00000088926 | F11
Description
coagulation factor XI [Source:HGNC Symbol;Acc:3529]
Coordinates
chr4:187205246-187206967:+
Coord C1 exon
chr4:187205246-187205414
Coord A exon
chr4:187205415-187206791
Coord C2 exon
chr4:187206792-187206967
Length
1377 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
CTCTGTTGTTTGCTCCTTAGGGT
3' ss Score
10.32
Exon sequences
Seq C1 exon
AGTGTACCACCAAAATCAAGCCCAGGATCGTTGGAGGAACTGCGTCTGTTCGTGGTGAGTGGCCGTGGCAGGTGACCCTGCACACAACCTCACCCACTCAGAGACACCTGTGTGGAGGCTCCATCATTGGAAACCAGTGGATATTAACAGCCGCTCACTGTTTCTATGG
Seq A exon
GTCAGTACCACGGCTGTTTTTATTAGTTCATCTTCTTCACACATTTATAAAAAATATTACTAGCATGTTAGGAAATAAATACTTTAACCAATTAGATTGTCTTATTTGCAAAATTAATTAATTGCTTCAGTGGTAAAAAACGCAAAAAGGAAGAGCTCATGGTCTCCCAGCATCAGAACAGGTGCAGGTACAAGGCTGCTTGACTGCCTGCTATTCCGCTTCCCATTTAACCGCATTCACATCCCCAAGGGCCTTCATGTTATTCCCTGCAAGAGCATACCTCCCTCTGTGCCTCGCTCTGTGCACTGTGCCCGGAACTAAACTCACAGAGGATTTACCATTGTCTGAATCAAATTTCTAATATGTGTGTGTGTGTGTGTGCGTGTGTGTTTAAATACAGAAAGTGGCCAGGTGTGGTGGTTCACGCCTGTCATCTCAGCACTTTGGGTGGCTGAGGTGGGAGGATTGCTCAATGCCAGGAGTCTGAGGTCAGCCTGGGCAACATAGTGAGACCTCGTCTCTAAAAAATATTTAAAAACTAGCCTGGCATGGTGTTTTGTGTGCCTGTAGCACCAGCTGCTCAGAAGTCTGAGGTAGGAGGATTGCTTGAGCCCAAGAGTTCAAGGGTGCAGTGAGTTACTACAGTGCCACTGTGCTCCAGCCTGAGCAACAGAGCAAGACCCTATCTCTAAGTAAATAAATAAAATACAGAACGAGTTCGGTATGCATCCTCACATTGGATTCCTTACTTAGGTCACTTTCAGCGTTGGCCAAACAAAAAGGCTCCAGCTGGGGGTATATATATTCCAGGGAAGTTAAGTTGGCCAAACTTTCCGTTTGCTACTTCAGTATCCTCCGAGTTGTTTCCAGACACAGTTTTGTGTGCTTTTTAGTTTTGGTTTTCTTTTTTAATCAATCTGCAGCACACTCATGTTAAACTCAAGAACACATGTGAGGCCAAGAGTTCCCGTTACCTGTCACATATGGGAATGGAGTAGCAGAAAGCCTAGTTTCTGTCACAGCTAGTTACTGGCGAGATTGAGACTGAGTCCAGCGGTCTTCGTGTGTGTGTGTGCGTGTGTGTCTGTGCAGTGTGCGTGTGTGTGCGTGTCTGTGTGTGCGTGTGCGGGTGTGTGCGTGTGTGTGTGTTGGAGCACGGAGGGAGTGCTCATTCATTTTTTGTGTATAATGGATTTTCTTTATAGGGTGAATATGTTTTTTATCCCGAAAAATCTTAGGATAAAATCACTTTTTTCTACCTAAATGTCCATCATTGGCAGAAAATATTAGTAATAATTAAACAGCCACACACTTCACAATGTCTGGGAATTATTTTTAGTAAAGGAAATTTCTTTCCCTCTGTTGTTTGCTCCTTAG
Seq C2 exon
GGTAGAGTCACCTAAGATTTTGCGTGTCTACAGTGGCATTTTAAATCAATCTGAAATAAAAGAGGACACATCTTTCTTTGGGGTTCAAGAAATAATAATCCATGATCAGTATAAAATGGCAGAAAGCGGGTATGATATTGCCTTGTTGAAACTGGAAACCACAGTGAATTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088926-F11:NM_000128:11
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:
PF0008921=Trypsin=PU(20.3=82.5)
A:
NA
C2:
PF0008921=Trypsin=FE(25.5=100)
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:
TGTACCACCAAAATCAAGCCCA
R:
TGTGTAATTCACTGTGGTTTCCAGT
Band lengths:
342-1719
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)