BtaINT0068392 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004204 | GPR107
Description
Bos taurus G protein-coupled receptor 107 (GPR107), mRNA. [Source:RefSeq mRNA;Acc:NM_001099164]
Coordinates
chr11:100479606-100480747:+
Coord C1 exon
chr11:100479606-100479689
Coord A exon
chr11:100479690-100480625
Coord C2 exon
chr11:100480626-100480747
Length
936 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
GGTGATTTTAAAATTCGCAGCTC
3' ss Score
3.24
Exon sequences
Seq C1 exon
ATCGTATGTTACATATACTTCACCAGGATTATTGCATTTCTCCTCAAACTCGCTGTTCCGTTCCAGTGGAAGTGGCTCTACCAG
Seq A exon
GTATGCGGCTCAGGGGACAGTGCCAGGGAACTTGTGTCTGAGCAGGAAGTCTCAGGGTAACTTGAGATGGTTCCAGATTTATTTGGCAGTGGCCACTAAGACCGTCTGTCTCTTCTGGTCCACAGTTAAGATGTGTTTGTCCAGGAAAGCTGCTGGATTACGTGAGAAATCTGGAACTGATGTAGTTTTCAATTTTAAAAGTCCTTGAAGAGAAAAAAAACCCCAGGCAGAGAAAGCCTTGCCCAGTATAATTCAAACCTCAATGAAATGGGGCCCAATCCTTCAGTTATAGGGCTTAGAATAGCTTAGAATCCAGACCTCCCTTCTTCTTGCCTATTGTTATTATTTCAGTAATAAAGTTGTCTTTGTAGTATTCTAGAGCTAGTTTAACTACTGGATAGTCACCAAATGATTTAGAGACTAGTTTTTGGAAGCTCTCACTTGGTGCTTTGGACGTTATAGGGAAATGTATGTATATAATGAGCTCTTCAAAGATGCCAGTGAAGACTTAAAGCAAGGACTCTCAAATGTCCTCTCTGGGAAGAAGTGAAAGTCATTCAGTCATGTCCGACTCTTTGCGACCCCATGAACTATACAGTCAGTGGAATTCTGTGGGACAGAATACTGGAGTGGATAGCTTTTCCCTTCTCCAAGGGATCTTCCCAGTCCAGGGATTGAACCTTCAGGGATTGAATCTCCCACGTGGCAGGTGGATTCTTTACCAGCTGAGCCACAAGGGAAGCCCTCTCTAGGCAGAAGGCTTCAGCAAGTCCCCTAAGGAACATGGTCCCCAACGGTCAGCTTTGCGTTTGAGTGGCAGATCAGTGAGCGGTGGGTTACTGGGGGGCGGGGTGGGGGGCAGTTTGTTTGGTTTCACTGCTTTCTGAAGAGCGATATTCTAATCCCTTTACTTGGTGGTGATTTTAAAATTCGCAG
Seq C2 exon
CTCCTGGATGAAATGGCCACGCTGGTGTTCTTTGTTCTCACGGGGTATAAGTTCCGTCCAGCTTCAGACAACCCATACCTACAACTTTCTCAGGAAGAAGATGACTTGGAAATGGAATCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004204:ENSBTAT00000005512:16
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=FE(9.2=100)
A:
NA
C2:
PF068148=Lung_7-TM_R=PD(8.2=58.5)
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:
CGTATGTTACATATACTTCACCAGGA
R:
TCCATTTCCAAGTCATCTTCTTCCT
Band lengths:
198-1134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development