HsaINT0063720 @ hg19
Intron Retention
Gene
ENSG00000171564 | FGB
Description
fibrinogen beta chain [Source:HGNC Symbol;Acc:3662]
Coordinates
chr4:155490666-155493915:+
Coord C1 exon
chr4:155490666-155490951
Coord A exon
chr4:155490952-155491570
Coord C2 exon
chr4:155491571-155493915
Length
619 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CCAAACACATTTTCTTTCAGGTT
3' ss Score
8.37
Exon sequences
Seq C1 exon
GTGAATATTGGCTTGGAAATGATAAAATTAGCCAGCTTACCAGGATGGGACCCACAGAACTTTTGATAGAAATGGAGGACTGGAAAGGAGACAAAGTAAAGGCTCACTATGGAGGATTCACTGTACAGAATGAAGCCAACAAATACCAGATCTCAGTGAACAAATACAGAGGAACAGCCGGTAATGCCCTCATGGATGGAGCATCTCAGCTGATGGGAGAAAACAGGACCATGACCATTCACAACGGCATGTTCTTCAGCACGTATGACAGAGACAATGACGGCTG
Seq A exon
GTATGTGTGGCACTCTTTGCTCCTGCTTTAAAAATCACACTAATATCATTACTCAGAATCATTAACAATATTTTTAATAGCTACCACTTCCTGGGCACTTACTGTCAGCCACTGTCCTAAGCTCTTTATGCATCACTCGAAAGCATTTCAACTATAAGGTAGACATTCTTATTCTCATTTTACAGATGAGATTTAGAGAGATTACGTGATTTGTCCAATGTCACACAACTACCCAGAGATAAAACTAGAATTTGAGCACAGTTACTTTCTGAATAATGAGCATTTAGATAAATACCTATATCTCTATATTCTAAAGTGTGTGTGAAAACTTTCATTTTCATTTCCAGGGTTCTCTGATACTAAGGGTTGTAAAAGCTATTATTCCAGTATAAAGTAACAAACACAGTCCCTAGATGGATTGGCCACAAAGGCCCAGTTATCTCTCTTTCTTGCTATAGGGCACAGGAGGTCTTTGGTGTATTAGTGTGACTCTATGTATAGCACCCAAAGGAAAGACTACTGTGCACACGAGTGTAGCAGTCTTTTATGGGTAATCTGCAAAACGTAACTTGACCACCGTAGTTCTGTTTCTAATAACGCCAAACACATTTTCTTTCAG
Seq C2 exon
GTTAACATCAGATCCCAGAAAACAGTGTTCTAAAGAAGACGGTGGTGGATGGTGGTATAATAGATGTCATGCAGCCAATCCAAACGGCAGATACTACTGGGGTGGACAGTACACCTGGGACATGGCAAAGCATGGCACAGATGATGGTGTAGTATGGATGAATTGGAAGGGGTCATGGTACTCAATGAGGAAGATGAGTATGAAGATCAGGCCCTTCTTCCCACAGCAATAGTCCCCAATACGTAGATTTTTGCTCTTCTGTATGTGACAACATTTTTGTACATTATGTTATTGGAATTTTCTTTCATACATTATATTCCTCTAAAACTCTCAAGCAGACGTGAGTGTGACTTTTTGAAAAAAGTATAGGATAAATTACATTAAAATAGCACATGATTTTCTTTTGTTTTCTTCATTTCTCTTGCTCACCAAGAAGTAACAAAAGTATAGTTTTGACAGAGTTGGTGTTCATAATTTCAGTTCTAGTTGATTGCGAGAATTTTCAAATAAGGAAGAGGGGTCTTTTATCCTTGTCGTAGGAAAACCATGACGGAAAGGAAAAACTGATGTTTAAAAGTCCACTTTTAAAACTATATTTATTTATGTAGGATCTGTCAAAGAAAACTTCCAAAAAGATTTATTAATTAAACCAGACTCTGTTGCAATAAGTTAATGTTTTCTTGTTTTGTAATCCACACATTCAATGAGTTAGGCTTTGCACTTGTAAGGAAGGAGAAGCGTTCACAACCTCAAATAGCTAATAAACCGGTCTTGAATATTTGAAGATTTAAAATCTGACTCTAGGACGGGCACGGTGGCTCACGACTATAATCCCAACACTTTGGGAGGCTGAGGCGGGCGGTCACAAGGTCAGGAGTTCAAGACCAGCCTGACCAATATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGCGTGGTGGCAGGTGCCTGTAGTCCCAGCTACCTGTGAGGTGGAGATTGCATTGAGCCAAGATCTCAACACTGCACTCCAGCCTGGGCAACAGCGTGAGACTCCACCTCAAAAAAAAAAAAAAAAGAATCTGACTATATACCATGGAAAAGCCACCACTCTGCCACTTAAATAAACATCAGGATCAGAGATTCCAAGAGGACAATCTGCATCAAGTCTTCACCAAGTGTTTTTTAAGCGAAATAATGAAATAGGGAGCAGAATATGCCTGTTGCCCATAGAAACGAGGTCTATTCTTGTCCTCAATTAGGCTTTTTTTTCTTCATAGTTACACCAGAACTAAAGTAAAAGTGGTTTTTCTGTTCTTTCTACTTCTCCCCATGAAATGGGCATATCATCTCAACACTTCACTCCAAGTCGCCACGGGCAACCTTATGACCCTAGGTCCTCCACCCCTAATGTATCATCATTGCCACCCATTTTTATGGTACTTATTGTTCTTAAGCTTATCCTCTTAATCTTTTCATGTAAGCAAAGCTCATTAATTTCTGTCTTGGAAATGCTACTACTCTCTTTAATTACTCACCAAATCCAACTTTAACTTTTGACCTGGTTTCTCTGCCACAAGTTCTGTCCCACTGGAGCCCATACTCACCTACCGCTTTGCCATCACATTTAACAGAAAACTCTTATCAACTTACTTCCTGCTTAACATTAGCTCCTTCCTATCTATATCCAAATTTCTTAAATTCAAATTTTTTAGCTGGAGTAAAAATGGTCCCAGTACCATTTCCTGTTCCCTTCACTATAACCTACATTTTTGTCACATTAAGTTTTTCCCCATTCCAGGACAGGTCAGGCCCTTTAAAAATTTCAACAGCTTTATTGAGATATAATTGATATAATTTAAAAAATCCTGCACATGTGTCATGCTGGAGCCCTATTGATTCCAACAGGGATGGCGCCTTGTCCAAGAAGAGACCCAGAGCCAGTGAATGGGACATAGGGTTTATTTAGGACTTAAATACAGATGTGGTCCAGTGGCAGTGGGCTGGACAGGACCGCTACTATTTGTAAAGAGTATGTAGTTTATATAACATTTCTACTTAGCACTCTCCACTTAGCAACCTCCATTTAACCCAAAATAAAAGGCCTTGGTTCCTTGCACATCCTGAGTTCCAACGGACAGGCAGGGAGTTCAAGTGTCCTTCACAGATAAGAAGTGAATCTCTCTGGGTTGGCCATTCCCGGATTCCTTAGCTTAGACTCTGAACACATATTCTTCTTAGACCATACAGTCATTCTCAGGGTATGCTTGAGTTAATGCTGTCGGATGCATCTGTCATACAAAGTGTTTAACATATACGATTTCATGATTTTGGAAATATGCATACACCCATGATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171564-FGB:NM_005141:7
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=0.078
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(37.8=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.7=92.3)
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:
CGGTAATGCCCTCATGGATGG
R:
TGGGGACTATTGCTGTGGGAA
Band lengths:
346-965
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)