BtaINT0062388 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006745 | FGG
Description
Bos taurus fibrinogen gamma chain (FGG), mRNA. [Source:RefSeq mRNA;Acc:NM_173911]
Coordinates
chr17:2823021-2823281:+
Coord C1 exon
chr17:2823021-2823135
Coord A exon
chr17:2823136-2823236
Coord C2 exon
chr17:2823237-2823281
Length
101 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TCTCTATTTTCCTCCTCTAGTAT
3' ss Score
9.41
Exon sequences
Seq C1 exon
AGTTCTGACATTCCAGGCTCGGAGCCCCGGGCCCGCCGACACCATGAGTTGGTCCTCGCACCCTCCGAGTGTAATCTTCTACATTCTTTCATTGCTTTCTTCAGCATGCCTGGCA
Seq A exon
GTAAGTGTGCTGTTTACAAAATGTATTTGTTTTAAACGGAAAGCTTAGAAATAAGAAAATATCTGATAAGCAAGTGAAATTTCTCTATTTTCCTCCTCTAG
Seq C2 exon
TATGTTGCTACCCGAGACAACTGCTGCATCTTAGATGAAAGATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006745:ENSBTAT00000049554:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF087025=Fib_alpha=PU(8.3=80.0),PF045827=Reo_sigmaC=PU(1.2=13.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGACATTCCAGGCTCGG
R:
TTTCATCTAAGATGCAGCAGTTGT
Band lengths:
154-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development