BtaINT0092590 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015097 | MGC139698
Description
Bos taurus calcium channel flower domain containing 1 (CACFD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080263]
Coordinates
chr11:104408232-104411600:+
Coord C1 exon
chr11:104408232-104408379
Coord A exon
chr11:104408380-104411527
Coord C2 exon
chr11:104411528-104411600
Length
3148 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TCGTGTGTTTCTCTTTCCAGCTT
3' ss Score
10.19
Exon sequences
Seq C1 exon
CGGCGGGCAGCGCCGGACGGCTGCACCATGAGCGGCGCGGGCGGGGCGGCGGTGGCGCCCGGGAGCTCGGCGCAGCCCGCGCAGGAGGAGGGCATGACGTGGTGGTACCGCTGGCTGTGTCGCCTGTCGGGGGTGTTAGGGGCAGTCT
Seq A exon
GTGAGTACTCGGCCCGGCCCCGCGCCCCCCACCCCGCGTGCCCCCGGGAAGGGACCCGCTCGGGATGCAGTCTGCTGGATGCACTGGGCGCGCGGGAAGCGGGCGCTTCTGTGGTTGCCATGGTTACCGGCTGGCGGCCGGGACTCCAGGCGCGTTCCGCCGCGGGGGAGGTGGAGCGTGACCGCCCGGGGAGCCGCGGGCCCGACGTGGCCTCACTGCCGCTCCCCCCTCCCCCCGACGCGCCTGGCCGGAGGGCAGCCCCGCCTGCTGACTCTGCTGCGCGTGCGGACAGCGACCGCCTTATCCTCCGGCGAAGGTTGTTTACACGTGGGGCGGGTGCAGGTCTGGCCAGGTTTCCCAAGGGGCAGGTGGTGTCGGGGAGCAGGTGATCCCCGAGGAAGGGAGGTGGCCCCTCCTCTGGGTCCTCGGGGTCCATCTGGAGACGGTGCGCTTCCTCTGATGTCAGCTCTGCCTCCGGCTGTCAACTCAGCCGCAGCAGCGCCTCGCATCCTCCTGTTCGCGGGATGCAGGCTCGTCCTGGACACACCCCCAACCTCAAGTTTTCCGGGAAGCCAGGCTCTTTTAGCGCAATCACCCTCAAAAGATCAGGTATAGGAAGGCGGATCTGCTACTCAGTGAAATAAAGATCTGGAGGTCTTCCGAGGCAAGCGTCAGTCTAGCTGAATGGTGCTGCTACCCACAACCTTGAGAATTACTGGACTCAGGCGGGCACAGCCCGAGGTCTTAAAAAGGGAGTGTCTGTCCAGGCATTCTCAGGATTTGAACAGTGACTGCCTGGCACAGAGGGCCGGGGCCAGGCAGACCCTGATCAGATATGCCAGAAGGAGCACCTCTTTAGGGGCCCTCCCAGGTGGGTGGAGGCCAGAAGAAAGCCAGGAGTGCAGGTTAGGAGTGTGCTACTCTGGCAGGGTGTGCCCCTGTCCAGAGGCCAGAGTGGGACAGGCCCTCTGCCAGTCACCAAAGGGCCTCTGAGTCTATGTCACTGCTATTCAGAGGAAGCATGCTTTTGACTTTGTAGGAGAGACTGGTCGGGTCTTAGATATGATCCTTCAGAGTCTGGGTAGCTGTTTCCCTGGCAGATCAGTGAGGCTGCTGTGGGACTGACATTGATGAGGCATGGGGAGGGGAGTGGAGGGCCTGACTGTGTCCTGTGGGCCATCACCCTCCTCCCTCTGTCTTGGGGTCCTCAGCCCTGCCGGTGGTGGGGGTTTAGTCACTAAGTCTTGTCCAACTCTTGCGACCCTATGGACTGTGGACTGTAGCCTGCCAGGCTCCTCTGTCCATGGGATTCTCCAGGCAAGAATACTGGAGTGGGCTGCCATTTCCTTCTCCAGGGGATCTTTCCGACCCAGGAATCGAACCCGGGTCTCCTCATCGCAGGCAGGTGCTTTACCAGCTGAGCCATGAGGCTGAGTCCCTTGTTAACTCTGGCATCCCAGCCAGCTCTGTGCTTTTGAAGCGGGATACCTGGGCCGCTGCAGGAGTTCATAGTGTTGGGGTGCTGACCCATGAAGATGAAGAGAAACCTGTGGCTTCACCCTGAAATGTCACTTTCACCTGCAGATTTAGGAACGTGATTGTCATGTGGATTCCCAACAGCATGTAACACAGGGTCGATTGCAAAGCACATAGGAGTTTTAGAGATGAGACTAGAGTTCAGATAGAGCTCCTGCTTCTGTCTGGTCGCTGTGCGGGAGCACCACCTTCCTCAGGTAGGGGGCCTTGGAGAGGCATTTCCTCGGGGTCTTGATTGTCATCTGGAGAAGACAGGCTGGCCCTGGACACCCCCCTCACTTGGGACGAGCATTGGAGGCCCCTGAGGGGACATCTTCCAGCCCTTGATGGTTAAAGGGCTCCTGGCTGGAGCCTGCTTGTCTGGGTTGAAACCTGGTCCTCCTGGAAGGTTGGCTGTTGGTAGACACAGGGGTGGAGGTGGAAGGCAGGACGTATGGGCCTCTGTCAGGCGAGACGGGCACAGCGGACTGTCGGGCAGAAGCAGTGCCATGTCTTGGGCACTCATACCTGTGGCCTGGGGAGCCTGCTGCCTGAATGAAGGTGACGGTTGGTCCGGGACAGGTGCCACCTTTAGTAGGGCGGAGCGCGTCTGTTGCTGCGGGAGACCTTGGGGGTCACACAGGGCAGGCTCCTTCCTGCACGTGGTTTCGTCTTGCATCGCTTGCTGTCTGTGTAGGGTTACACGGGAACACACCAGGAGGGCTCCAGGCCTTCTCAGGGATCAGGTATGGAGGGAGCTGCTGCAAATTTAATGAACTGGTTGCTCATTGTTGCCTTGGGGCGGGGGGGCAGCTTCCTGCCCAGCAACCGGCTTCCTGGCCCTGCCTGGCAGGCTCCCAGAGTTCTTGGTGAAGCGGGCTGGGGCCCTGGGGACGGAGGGAGGCGAGTGCACAGACCCTGCCATGGGAGGCCATCGGGGGCGTGAGCGGGCTCCACGTTTGGGGCCCCAGGGAAGCCACTTTCCCGGGTAGCAGAGGATGCCCCCTCCACACCGCAGGCCCTGGGTGTTTCCAGGTGGGTGGGCTGGGCTGCAGGAGAGGAAACCGGCCTGGAAAGGTGAAAAGACCGTACCCAGAGTCACTGGGCTTGGTTGTGGTCAGAGCGGGGATTGTGACCCAGGCTGACCTGATCCCGATTTCTGTTCCAAGAGGGGCATTCCTGTCTGCACCTACACCCAAAGGGCCTCTCCCGCGGCCCACGCCGTGCGTGGTGCCGCCTCCCTGCCCCGAGCCCTTGAGAGACAGTCTGTCTTTGATGCTGCTCACTTTGCAAGGTGGGTGTCGGGACAGCTGGGGCTCAGAGGGTGGGCTCCCCCAGGCCTGGGACAGAGAGAGGGCGGGATGCCCTCACTGAGCCCTCAAGCAAGCCGGCTCCGGGATCCAGCTGCGCCCTGGCCATGGGGTCTGGGCAAGCACTTCACCTGCCTGAGTCTGTCCTCACCGGTCTGTGGAGCCATGTGCTGGCCTCGCTTGGGTCAGCTATCCGAGGGCAGACGTCTGGGTGCTGTGAGGAGAGCCTGGGGCTGAGTCGGAAGGGCTTCTCGCACCGTCTGGAGCTGTCTCCCTGGGTGGCCTCCCCTGGCCGACTCCCGCTCGTGTGTTTCTCTTTCCAG
Seq C2 exon
CTTGTGCGATCTCGGGCCTCTTCAACTGCATCACCATCCATCCTCTGAACATCGCGGCCGGCGTGTGGATGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015097:ENSBTAT00000020090:1
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=0.000
Domain overlap (PFAM):
C1:
PF102334=Cg6151-P=PU(6.4=17.1)
A:
NA
C2:
PF102334=Cg6151-P=FE(21.8=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development