BtaINT0063743 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008994 | FPGS
Description
Bos taurus folylpolyglutamate synthase (FPGS), mRNA. [Source:RefSeq mRNA;Acc:NM_001024480]
Coordinates
chr11:98498179-98499903:+
Coord C1 exon
chr11:98498179-98498345
Coord A exon
chr11:98498346-98499774
Coord C2 exon
chr11:98499775-98499903
Length
1429 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
TACCTGGGGCTCACTGCCAGGAT
3' ss Score
3.45
Exon sequences
Seq C1 exon
CGGTCCGGGCCTAGCGTGCAGCTGCCTGGCCCTCTACTATGTCTCGGGCACGCTGCCACGCTCTCTTCCTGGCAGCGGTTTCTCCGCGTGGTGCAACAACCAGGGTCGCAGTGCGGCGAGGGTTGAGCGCGTGGCCTGTGCTGCAGGAGCCAGACATGGAGTATCAG
Seq A exon
GTATCTTTGCCCCCCGGCGGGAGGTCACGCAATGACTCGTGAGCCAGCCTGAGGTCACTTAGCATCTGGTCTGCGCCAAGCTGAGTGGGTGGCCAGGAGCCTGGGACCGAGAGACTCGCAGGGGTCGAGGGGCGGGGCGGGCGGGGACCTTCTGGAGTCTGGAGGTGGGGACAGGCACCAGGAAGTTGGGCCCCGCTCTACCGGATTTGGAAATTCTGAGGCTGAAGTGAACCGCGGTTGGAAGAGAGGAAGGGGACGCCTGGTGGTAGGACCAGCGGCTCAGCTGAGATTCTGGAGTTATTACAGTGTCTCCGGACTCCGAAGCAGCAGTTGGGGGTGGGGGAGAGTAGAGGGATTCGGGAGTTCAGACTTGGGAGATCCAGGAGTCTAGATGTGGGTTGGAGTCTCCAGGATTCAGGAAGAAGGAGATCCAAGTGCTTAGAATTGGGGGACAGGCAGAACTCAGGAGCAGGGGCGGTGGTTAGACAAAAAACTTCCTCCTGGTTCTGTGCCAAAGGCCGGTTGCCAGAGAGCAGCACAGGATGGTGGCCAGGCAGGTGGCACAAGTTTGACGAGTAGGGCCTGCAACCAGGGCCTGCCATTGAGGCCCTGAAGGATTATAAATATCACTCCCACTTCCACCACCCAGTGTGAGCTGTCCTGAGGCTATGCCTACTTGCCTTCTTGTCTGGGCAACCCTGGCACACCCTTCCTCCCACTGAGACTCCTCTTTACCAACTGGTTGCCTCAAGCAACTCTTCTCTGGGTCAGAATGTGGGATCCCAATCCTCAGGGTTAGGCATGGAAGCCTCCAGGAATTCCTAGTTCTAATTCCGTCAGTTCTAAGATCCTAGCCTTCTGTGGTTCTGGCCCTGCTTTAGGAGGAGCCTGATATAGTGGTGAACTATGGAGGGAATTGGGCTTCCCCAGTAGCTCAGTGGTAAAGGATCTACCTGCCAGTGCAGGAGATGCAGGGGATATGGGTTCAATCCCTGGCTCAGGAAGATCCCCTGGGGAAGGAAACGACAACACACTCCAGTATTCTTGCCTGGGAAGTCCCATGGACAGAGGAACCTGGTGGGCTACGGTCCATGGGGTTGCAAACAGCTGGACATGACTGAGCGTGCACACACGCATGCACGCATGGAGAGAATTAGAGCAAAGGCCTGAGAGTGAAGCCTAGTCCTGTTAGTCATTTTACCTCTTTTTGCCTGGCACTCCCTAGGTGAAGCTGAACTGCCCCAGGCTCCCATTTCTGCCAGAGCTAGAAAGATGCCACTTCTTTCTCAGTGGTGCCTAACCTCTGGGCTGGGGCACCAGGGCTGGCCTGGCAGTCCTGGTACCTGGGCCTAGCCACCGGCATGCTGTGTGCCTCTGTCCCTGTGGGCCCCTAATGCGCCTTAACTTGCTACCTGGGGCTCACTGCCAG
Seq C2 exon
GATGCCGTGCGTACACTCAACACCCTGCAGACCAATGCTAACTACTTGGAGATGGTGAAGCGTAAGCGGGGTGACCCCCAGACACAGCTGGAAGCCATGAAGCTGTACTTGGCACGGAGTGGGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008994:ENSBTAT00000032762:1
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=0.049
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGCCTGGCCCTCTACTAT
R:
CCACTCCGTGCCAAGTACAG
Band lengths:
270-1699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development