BtaINT0062396 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006745 | FGG
Description
Bos taurus fibrinogen gamma chain (FGG), mRNA. [Source:RefSeq mRNA;Acc:NM_173911]
Coordinates
chr17:2830048-2830960:+
Coord C1 exon
chr17:2830048-2830217
Coord A exon
chr17:2830218-2830739
Coord C2 exon
chr17:2830740-2830960
Length
522 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGA
5' ss Score
5.59
3' ss Seq
ATTTTTTGTTTTGATCATAGGCT
3' ss Score
6.86
Exon sequences
Seq C1 exon
GTGGCACTTACTCAAAAACATCTACTCCTAATGGTTATGATAATGGCATTATTTGGGCCACATGGAAATCCCGGTGGTATTCCATGAAGAAAACCACCATGAAGATAATCCCACTTAACAGACTTGCCATCGGAGAAGGACAGCAGCACCAACTGGGGGGAGCCAAACAG
Seq A exon
GTCGGAGTAGAACATCACGTTGAAATAGAATATGACTAAGTCATTTTGCCCTGAGCTGTTCATTCTGTTAACACACAAAGTTTCAGAAACTTTCCTGAAATTTTCTTCTCGTTTTCTCTTACCGTATTTATTAATTTTAAGTCTTTCTTTAAGGATATTTAGCTCTGAATGGCAATTAAAACTCACTTTGGACTGTATTCCCAAGTTACTAAACACAGAGTTATTATAAATTTGTCTATTTGATGAGATAATATTTTAGCTTATTTCCTAAATATATAATAAATTCATTGTGATATTTTGCATTTTTTTCATATTTTGTATTTTAATGATCACACATAATTGGGTCTTGGTGATTTTTTAAATTATTTTAAAAATAGTTTAGTATATACTAATATAACAGGAGCAGACTTTAGGAATTCAAATGCCTAGGTATTTCATTACCTCTCAATCATTCCTATTTAATTATTCTTTTTTAATGGAGATAATTATATCTTTTTAATGTATTTTTTGTTTTGATCATAG
Seq C2 exon
GCTGGAGACGTATAAAAGACCATTTCAAAAGTGATTTACTTTTTTAAAGAACTTTATCTGAAAAGAAAAAGATAATATTTTTCCTATGGGACAATGGACTTGCAAAGCCTCACTTCACTTTAAAAGTAAAAAGAACCCATGTTGAGAACTCCACTAACAGTTTTATGCCGGTGATAATTTATCTACATACCATTTCAATAAATATTTTGTTTCCTAAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006745:ENSBTAT00000049554:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PD(15.8=54.3)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCACTTACTCAAAAACATCT
R:
ACCGGCATAAAACTGTTAGTGGA
Band lengths:
342-864
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development