HsaINT0064195 @ hg19
Intron Retention
Gene
ENSG00000130720 | FIBCD1
Description
fibrinogen C domain containing 1 [Source:HGNC Symbol;Acc:25922]
Coordinates
chr9:133777825-133780800:-
Coord C1 exon
chr9:133780621-133780800
Coord A exon
chr9:133779711-133780620
Coord C2 exon
chr9:133777825-133779710
Length
910 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGTGTGCACCCCTGCGCAGGCG
3' ss Score
8.38
Exon sequences
Seq C1 exon
GGCTCAAGAGGATCCACGCCCTGACCACACAGGCTGCCTACGAGCTGCACGTGGACCTGGAGGACTTTGAGAATGGCACGGCCTATGCCCGCTACGGGAGCTTCGGCGTGGGCTTGTTCTCCGTGGACCCTGAGGAAGACGGGTACCCGCTCACCGTGGCTGACTATTCCGGCACTGCAG
Seq A exon
GTGAGGCTCCAGCTGTGGCAGGGATGGGGAAGGGGGGCGGCCTGGGAGGATGGAGGACGGAGGAGGTCCTGCCCTCCAAAATGATCAAGGCTAATGTATTTTTCCCCCTTTGAAAGTAATCAGGTTTTTGAAAAATAACAAATATTGATAAACTACCAACCCCACATCACAATCAGAGGCCTGAAACCAATCTAAATTTTTTTTAAGTAATAAATTTTTCAAATTGGAAGAGTAAACAAGACAGAAAAGGGAAAATTTTCTTCCTTACCAAGGATCCCTCAGTCCTTGTCTTCATCAGTTGATTCAGTTGCATGTCATAAAAGATGAGCTTCTGCGAATCTTCTGTTCGTTTTTTCATAATAGTGTTGATGATGCCCTTCGGCCCTCTGGGGTCAGGGTCAAGGCTGCTTGCCTCCTCCTCCAAGTCCTGCTTGGTCCTCACCCCTGCAAGGCGAAGCCAGCAGAGCCTGGACTGTTTTCCCGTTTTGCAGATAAAGAAACTGAGCCCAGAGCCAGGAATCAGGAGACCCGGGGTTCGGGTCCGCTGGGTCTCTAAAGTGTGGTGGCTGGACCCCCCTGGGCTGGGTTTCCCCTCTCAGGCCGAGGAGCGGGGAGGCAGGAGAGGGAATGTGGAAAAGCTGGGGGGAGGGATAGAGACCGCCTAGACCCAGGGGCAGCCCCAGGCACGCCCGAGAAGGGACTGCGTGCGTGTGAGCTGCATGGACACACCCGGGTGTGGAGGGGCAGGTGCGCTTGCACGCGTGCACAGCAGTATGTGTGAGAGCACGTGCGTACGTGTATGCACTCACGTCCAGGTGCACGTGCAGTGTCTCGGTGTCTGCTCACACATGCAACACCAGTGGGTGTACCCGTGCCCCCCGTGCCCACACCTGTGTGCACCCCTGCGCAG
Seq C2 exon
GCGACTCCCTCCTGAAGCACAGCGGCATGAGGTTCACCACCAAGGACCGTGACAGCGACCATTCAGAGAACAACTGTGCCGCCTTCTACCGCGGTGCCTGGTGGTACCGCAACTGCCACACGTCCAACCTCAATGGGCAGTACCTGCGCGGTGCGCACGCCTCCTATGCCGACGGCGTGGAGTGGTCCTCCTGGACCGGCTGGCAGTACTCACTCAAGTTCTCTGAGATGAAGATCCGGCCGGTCCGGGAGGACCGCTAGACTGGTGCACCTTGTCCTTGGCCCTGCTGGTCCCTGTCGCCCCATCCCCGACCCCACCTCACTCTTTCGTGAATGTTCTCCACCCACCTGTGCCTGGCGGACCCACTCTCCAGTAGGGAGGGGCCGGGCCATCCCTGACACGAAGCTCCCTGGGCCGGTGAAGTCACACATCGCCTTCTCGCCGTCCCCACCCCCTCCATTTGGCAGCTCACTGATCTCTTGCCTCTGCTGATGGGGGCTGGCAAACTTGACGACCCCAACTCCTGCCTGCCCCCACTGTGACTCCGGTGCTGTTTGCCGTCCCCTGGCCAGGATGGTGGAGTCTGCCCCAGGCACCCTCTGCCCTGCCCGGCCAAATACCCGGCATTATGGGGACAGAGAGCAGGGGGCAGACAGCACCCCTGGAGTCCTCCTAGCAGATCGTGGGGAACGTCAGGTCTCTCTGAGGTCAGGTCTGAGGCCAGTATCCTCCAGCCCTCCCAATGCCAACCCCCACCCCGTTTCCCTGGTGCCCAGAGAACCCACCTCTCCCCCAAGGGCCTCAGCCTGGCTGTGGGCTGGGTGGCCCCATCCTACCAGGCCCTGAGGTCAGGATGGGGAGCTGCTGCCTTTGGGGACCCACGCTCCAAGGCTGAGACCAGTTCCCTGGAGGCCACCCACCCTGTGCCCCGGCAGGCCTGGGGTCTGCAGTCCTCTTACCTGCTGTGCCCACCTGCTCTCTGTCTCAAATGAGGCCCAACCCATCCCCCACCCAGCTCCCGGCCGTCCTCCTACCTGGGGCAGCTGGGGCTGCCATCCCATTTCTCCTGCCTCTGGAAGGTGGGTGGGGCCCTGCACCGTGGGGCTGGACTGCGCTAATGGGAAGCTCTTGGTTTTCTGGGCTGGGGCCTAGGCAGGGCTGGGATGAGGCTTGTACAACCCCCACCACCAATTTCCCAGGGACTCCAGGGTCCTGAGGCCTCCCAGGAGGGCCTTGGGGGTGATGACCCCTTCCCTGAGGTGGCTGTCTCCATGAGGAGGCCAACCCTTGCCATTGACCGTGGCCACCTGGACCCAGGCCAGGCCCGGCCCGGCGAGTGGTCAAGGGACAGGGACCACCTCACCGGGCAAATGGGGTCGGGGGGACTGGGGCACCAGACCAGGCACCACCTGGACACTTTCTTGTTGAATCCTCCCAACACCCAGCACGCTGTCATCCCCACTCCTTGTGTGCACACATGCAGAGGTGAGACCCGCAGGCTCCCAGGACCAGCAGCCACAAGGGCAGGGCTGGAGCCGGGTCCTCAGCTGTCTGCTCAGCAGCCCTGGACCCGCGTGCGTTACGTCAGGCCCAGATGCAGGGCGGCTTTTCCAAGGCCTCCTGATGGGGGGCCTCCGAAAGGGCTGGAGTCAGCCTTGGGGAGCTGCCTAGCAGCCTCTCCTCGGGCAGGAGGGGAGGTGGCTTCCTCCAAAGGACACCCGATGGCAGGTGCCTAGGGGGTGTGGGGTTCCGTTCTCCCTTCCCCTCCCACTGAAGTTTGTGCTTAAAAAACAATAAATTTGACTTGGCACCACTGGGGGTTGGTGGGAGAGGCCGTGTGACCTGGCTCTCTGTCCCAGTGCCACCAGGTCATCCACATGCGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130720-FIBCD1:NM_032843:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(27.5=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(37.2=93.1)
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:
TTGTTCTCCGTGGACCCTGAG
R:
GACAAGGTGCACCAGTCTAGC
Band lengths:
343-1253
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)