BtaINT0062416 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016177 | FGL1
Description
Bos taurus fibrinogen-like 1 (FGL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034313]
Coordinates
chr27:18466710-18467254:+
Coord C1 exon
chr27:18466710-18466798
Coord A exon
chr27:18466799-18467066
Coord C2 exon
chr27:18467067-18467254
Length
268 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
AATCGCCTCTTTTTCTTTAGAAT
3' ss Score
9.68
Exon sequences
Seq C1 exon
GAGATTACACATTAAAAATCGACCTTGCAGATTTTGAGAAAAATAGCCGTTATGCTCAATATAAAAATTTCAAAGTTGGAGATGAAAAG
Seq A exon
GTACTAACATTTTCAAATACATATCACCACAAATTAATGTGTAAAACATACAATATAAAACCCAAAGTCAGGGGAAACAAAAATCTGTGATAGAGCCTGATCTTTTATTTATTACATAAGCCTGTTTTTAAAATAGTAATAGAGAAACCCAGGTGGGCTACACTCCATGGGGTCACAAGGAGTCAGACACTACTGAGTGACTGAACACACACATACACATACACAAAATAGTAACAACTGATCATGGAAATCGCCTCTTTTTCTTTAG
Seq C2 exon
AATTCCTATGATTTACATATTGGGGAATATTCTGGAACCGCTGGAGACTCCCTTACTGGAAATTTTCATCCTGAAGTGCAATGGTGGGCCAGTCACCAAAGAATGAAATTCAGCACGTGGGACAGAGACAACGACAACTACGAAGGGAACTGTGCGAAAGAGGATCAGTCTGGCTGGTGGTTTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016177:ENSBTAT00000021534:5
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=0.016
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(12.8=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(27.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACATTAAAAATCGACCTTGCAGA
R:
TGTTAAACCACCAGCCAGACTG
Band lengths:
270-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]