HsaINT0059150 @ hg19
Intron Retention
Gene
ENSG00000143278 | F13B
Description
coagulation factor XIII, B polypeptide [Source:HGNC Symbol;Acc:3534]
Coordinates
chr1:197030914-197032187:-
Coord C1 exon
chr1:197031987-197032187
Coord A exon
chr1:197031100-197031986
Coord C2 exon
chr1:197030914-197031099
Length
887 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
AATAATTTTTTTTCCCATAGAAA
3' ss Score
9.24
Exon sequences
Seq C1 exon
AGAAACCCTGTGGTTTTCCTCATGTGGAAAATGGAAGAATTGCCCAATATTACTATACTTTTAAAAGCTTTTACTTTCCAATGAGCATAGACAAAAAATTGTCATTTTTCTGCTTGGCTGGTTATACCACTGAAAGTGGAAGACAAGAAGAGCAAACCACGTGTACAACAGAAGGCTGGTCTCCAGAGCCAAGGTGCTTCA
Seq A exon
GTAAGTCAGCTGGATATGTCACTCAATGTTTCAATACTCAAAGAAATTTGTATATAAAAATAGGGGTCCAATAAAAATGGAAAGCGGTTAAACCTTTTAGTAGATAAGAACAAAATCACTAGCAATCTGTCTTTCTACAAAATGAAGGCATAATTTGAAATCCAGTAAATAATGCTTTTACATTAAAATGTTATTTTCTGTATCTGTTTTTAATAATACTCTGTTGAAGGGAATAGGGTAATAACTGAAATTATCATATTGCAAGGCAAAGAGAGGTAATTTACTTTAAGTAACAAGAAACTTATTTTGATAATTAAGCATAAGATGCCAGAAAAATGCTTGAAACTCTGGCCTCTGGAAGGGCAAGATTGCTACTCTAATGCTTTATCATTTGTAAGACTCATCTCTCTTCATGTGCCAACTTCTCTCATGATACCCATTGAAAAATGTGTTTTTCAATTTTGAATTGAAAGTTTGAGTTCAAAGTTGTGAGAAGGTAATCTAATTGACTCATTTCATTATTTTATATCAGGCTACACTATCATCAAACTATCAATGATCTTCCACTAGGGCAGGTGACCCAGAGTAAGGGGCTTTGGTTGAGCCAGTTTCGTTTAAAAGAGGATGTTGAATATGGCTATTGTGGTTGATATATCTAGTAAACCTATCTAGAAGTAGATGTGGTAGGGGTAGAAATTACTATAAGAACTAAAATTAGTAAATACAAAGAGAGTCAGTGTTAAATTGAATCCATTTTCAAAAAAATTATGCAGATATTTCCAAAATGAAATCGCCAATAATAACATTATACTTTTGGCTTAATTTTACAATTTAGTAAAAGACAAGCTTAGTTTCATCATTAAGTTAAATAATTTTTTTTCCCATAG
Seq C2 exon
AAAAATGCACTAAGCCTGACCTGAGTAATGGTTACATCTCTGATGTAAAGTTATTGTATAAAATTCAAGAGAACATGCGTTATGGTTGCGCTTCAGGGTACAAAACCACTGGAGGGAAGGATGAAGAAGTGGTTCAATGTCTCTCTGATGGATGGTCTTCTCAACCAACCTGTAGGAAAGAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143278-F13B:NM_001994:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=92.6)
A:
NA
C2:
PF0008415=Sushi=WD(100=88.9)
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:
ACCCTGTGGTTTTCCTCATGTG
R:
AGACCATCCATCAGAGAGACA
Band lengths:
355-1242
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)