BtaINT0068400 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004204 | GPR107
Description
Bos taurus G protein-coupled receptor 107 (GPR107), mRNA. [Source:RefSeq mRNA;Acc:NM_001099164]
Coordinates
chr11:100451473-100452228:+
Coord C1 exon
chr11:100451473-100451583
Coord A exon
chr11:100451584-100452094
Coord C2 exon
chr11:100452095-100452228
Length
511 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TAGTCTCATGTTGGTTTCAGATC
3' ss Score
6.71
Exon sequences
Seq C1 exon
TTTTTCTTTAACATCAGCACTGATGACCAAGAAGGCCTCTACAGTCTTTATTTTCATAAGTGTCTTGGAAGTGACGCTTGGTCTAATGACAAGTTTTCGTTCAGCCTTGAT
Seq A exon
GTGAGTACCATATGAAAACTGCTCCACACAGATGTTGTCAGCTGTGTAAAATGCAAGATGGTTTTTTTCTTTCTAAGAGCAGTTTTAAGAACATTTAAGCAGAGTTAGAGAAAAACATGGCCAGAATAACATTTCTGCCAGTGGCCAGCATACTTCAGCAGAGGATTCTTCAAAAGGAAATATAAGGGATTTATATTAGGATGTGTTTACACTTCAGCCTGTGCATTAAGAATGTGGTTGTTTGGACTTCCTATGTGGTCCAGTGGTTAAGACTCTGCACTAATAAGGCGGGGATGCAGGGAACTGAGACCCCCACACGCCTCAGGGTGCAGCCAAAAAATAAAGTGTCACAGCGTCTATAAGTCATCTATGCTCTGTTTCCTAAAAGAATATGGTTGTTACCTTCCGGTACTCACTTTCTTGAGCTTCTGTGAAATAGCAGAGATTCCAAATTACTGAATATGGGATGATCTGTTTCTGAAAAGTGAAAATAGTCTCATGTTGGTTTCAG
Seq C2 exon
ATCGAGATCACAGAGAAGAATCCTGACAGCTACCTCTCAGCAGGAGAAATTCCTCTCCCCAAATTATACATTTCCATGGCCTTCTTCTTCTTTCTCTCTGGGACCATCTGGATTCACATCCTTCGAAAACGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004204:ENSBTAT00000005512:8
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=0.000
Domain overlap (PFAM):
C1:
PF068148=Lung_7-TM_R=PU(9.9=78.4)
A:
NA
C2:
PF068148=Lung_7-TM_R=FE(15.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACTGATGACCAAGAAGGC
R:
TCGAAGGATGTGAATCCAGATGG
Band lengths:
222-733
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development