BtaINT0068396 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004204 | GPR107
Description
Bos taurus G protein-coupled receptor 107 (GPR107), mRNA. [Source:RefSeq mRNA;Acc:NM_001099164]
Coordinates
chr11:100444346-100445742:+
Coord C1 exon
chr11:100444346-100444425
Coord A exon
chr11:100444426-100445602
Coord C2 exon
chr11:100445603-100445742
Length
1177 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
TCTGTCTTACTTGAATATAGAGT
3' ss Score
4.41
Exon sequences
Seq C1 exon
GATGAAGATGTGAATTACTGTATTTTAAAGAAGCAGTCTGCCTCTGTCACGCTTTTAATCCTAGACATCTCCAGAAGTGA
Seq A exon
GTAAGTAATGCTAAGATCCTTCAGTTCAACCCTAAAGTAAAGTTGGGGGACTTCGGTAGTTAAGCTAAGACGCGTATCATCTGCCACACGCCAAATACTTTGCCGAGTGCTGGAGATCAGGTGGAGGTGCAGTCCTGGAGGAGCTTCTAGATGAGACAGCAGCGATACCAGTGGTGGCAGCAACCTGGAGGAGCAGTAGGGCAGAGGGACGGTGGTTTGTGGGCAGGAAGGGAAGGCTTCAGAGAAGTGTTGGCGCAGCCAGCTTTCTCGTGAGGAGACTTTGCAGAGGAATAAGAAAGGGAAGTGCATTCCCAGCAAAGAGAACGTGTTGCACCGAGGCAGAGTAGCGTGCGCTAGCATGGCACGTGTTCAGTGAAGTGAGTGTGTTGTTCGCGCCAGCTAAGGGGAAGAGGGAGGTTTCTGCCTATCCCATGCTGGACGTGCTCCCCTTGACATGTGCGATAGTGCCACCTGAGGGCACGTGTCCACTCCGGCATCGAAACTTGCGGGCCCCTCCTCAGGCGGGATGGGTCTCACACAATTGGGGTCTGGTCAGCAGGGAGAGGGAGGACATGCACCTTTCATGGGCTGCGAGTCGTTTTTCTGCCCTTCGCTTGCTCCCCGAGGCCTGTTTTAACGTCTTACTGGGTTTTTTTAACCTCTTGTTCCTTTTCCCGTGTGCACAAAGTGCAGGAAAGATGGGGAAAGAATAGTCATTTCTCCTGATTCCCCACGTTAGAATACTCAGTCATTTATATTTCCTTCTAAACTTGTTTCCTAAGTCTAGAACATCTGATTTTAAAAATCCATAGTCATTTTATAATTTTATAAGCGTCCCTGTTCATTCAGCTTGATCATCATCAGTTTGTTGAACACATTACACATACTTAGGGAGGAAATATATACCTCAGAATCAAATGGTTGCTACAGACTCAAACTTTGGAGTGGGGCTGCCCCAGCTGCTGACTAGCTTGCTACTCTTGGGCAAGTTCTTTAACCTTTTAGCTTCCATTTCAGCATCTGTAAAAGGCAGATAATAGAATCTGTATCCAGTCCATCACGGACTGCATGAGATGATGGGCTTAGAGCTGGAAACAACACCTAACTGACAACACCTACCTGCCGTAAGCTTTACTTTGATCTCTTTCTCTTTTTCTTCTGTCTTACTTGAATATAG
Seq C2 exon
AGTGAAAATAAGATCTCCACCAGAAGCTGGTGCCCAGTTACCAAAGATCATCTTTACCAAGGATGAGAAGGTTGTTGGTCAGAGCCAGGAGCCTGGTGTTAACCCTGTCTCATCAGGCAGCCAGGCTCCGAAAGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004204:ENSBTAT00000005512:4
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=0.438
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTAAAGAAGCAGTCTGCCTCTGT
R:
CTTGTTCTTTCGGAGCCTGGC
Band lengths:
198-1375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development