GgaINT0072468 @ galGal4
Intron Retention
Gene
ENSGALG00000009262 | FGB
Description
Fibrinogen beta chain Fibrinopeptide B Fibrinogen beta chain [Source:UniProtKB/Swiss-Prot;Acc:Q02020]
Coordinates
chr4:19785664-19786975:+
Coord C1 exon
chr4:19785664-19785949
Coord A exon
chr4:19785950-19786841
Coord C2 exon
chr4:19786842-19786975
Length
892 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TCCTGTTTTTACTTTATCAGGTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTGAATATTGGCTTGGAAATGACAAAATCAGCCAACTTACCAAGATAGGACCCACAAAGGTTTTAATTGAAATGGAAGATTGGAATGGTGATAAAGTATCTGCTCTTTATGGAGGTTTCACCATACATAATGAAGGAAACAAATATCAGCTTTCTGTTAGTAACTACAAAGGCAATGCAGGCAATGCTCTGATGGAAGGAGCTTCACAGCTGTATGGAGAAAACAGGACAATGACAATTCACAATGGCATGTACTTCAGTACTTATGACAGAGACAATGATGGATG
Seq A exon
GTATGTACTTGCATTAGACATTTAAAAGAAATTACCAGACTGTATGTATCTGCTTAAAAAAAAGCCCACAGACTATTTCAACTAACTTGCTGTTAGTTTGCACAGCACTTTATAGTATCTTAAAATGTGTTTTCTTACTGTAAGTTACTAGCCAAGCCCCAATTCATCCTGTTCTGGTGCAGCTTAGGGCATAATGGGCATAGCCAAAGAGTTAAAACTATACTGTTAGTGCTGCTCTATTACAAAATAAGGAACAGGAATACTGAATTTTACTGATTCCAGGAATGATGTTCAGACTGATGCTTTGTCTATAACACAATATACTCATTATCAGAGCTTGATGGAGGTAGTGCTTAGGACTATTGTTTTGGTTAAGTAGGAATATTGGTACTCACTCCAGTAATACAGAGATGAGTCCTAAGGGGAGGCACAAATTATGATAAAAGTCCTGCCTACTCAGAAGACAGGAGCTCAGTTGTAGAAGACATATTTTAGATCTAAAGTGCTAAATTAAGTGTTAGGTCTATCTTAAAAATAGATTTGTTCAGATTTGAGAATACATACAATTGTCATTATTTCTAGTACCTTTAAATTATGATGATATTGCAATTATCATTATGAACTGAGGGAACTGTTGTTATCAACTGGTAAACTATAACGTCATTCCCAAAGAGACGCAACTAGAATTTTAACTATATCTATAAGCAGCTTCATTTGCAGGCACACAGCATAACACATGCTTGCAATAGTCAATCTTTTACAGAAAGTTTAGATAAGATTTTAAGTATTTGTTGTAGTTTGAAAGTTTCAGTACGGGGACACATATACACACTCCAGACCTATTTTCTTACAGTTCATCTGTGACTCTTATCTCCTGTTTTTACTTTATCAG
Seq C2 exon
GTTAACTACAGATCCAAGAAAACAGTGTTCCAAAGAAGATGGTGGTGGATGGTGGTACAATCGCTGCCATGCAGCCAACCCTAATGGCAGATACTACTGGGGAGGGACTTACAGCTGGGATATGGCAAAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009262:ENSGALT00000015073:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(39.6=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.8=93.5)
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:
ACCAAGATAGGACCCACAAAGGT
R:
CCCTCCCCAGTAGTATCTGCC
Band lengths:
354-1246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]