BtaINT0113359 @ bosTau6
Intron Retention
Gene
ENSBTAG00000035144 | PLCXD1
Description
Bos taurus phosphatidylinositol-specific phospholipase C, X domain containing 1 (PLCXD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105044]
Coordinates
GJ060118.1:6885-8662:+
Coord C1 exon
GJ060118.1:6885-7068
Coord A exon
GJ060118.1:7069-8018
Coord C2 exon
GJ060118.1:8019-8662
Length
950 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
AAGCCCCTCTCTTGTCCCAGGCG
3' ss Score
6.84
Exon sequences
Seq C1 exon
GAGGTGCCAACTCTGCGCCAGCTGTGGTCACGGGGCCAGCAGGTCATCCTGTCGTACGAGGACGAGGCACCCGTGAGCCGTCACACGGAACTGTGGCCCGGGATCCCCTACTGGTGGGGGAACAAGGTGAAGCCCCAGGACCTCGTAAACTACCTGGAGCTCATGAAGAGCCACGGCCGGCCGG
Seq A exon
GTGAGTGCCACCTCGCACCGAGACACCTAGCCACACGCGTGTCCAAGGGCACGGGGCTGGTTTTGGGTTCAAGTGGAGAAATGGAACGGGACGTGTTAGGGGTATTACTCTGTCCACCACAGGGGGTCAGGACGTGGACATCCATGCGGACATTATTGTGCCCACCACACGGGGTCAGGATGTGGACAGGACGTGGACATCCATGCAAACATTACTGTGTCCACCACACGGGGTCGGGATGGGGCCATCTTTGGGGTCACTGTCCAGCCTGCCTGCCCTCTGTAACAGCAGAAATTCATGAGTCAACACCCCTGTGAGCCCCTGCTGTCTGAACTTTGGTCTCTGTCAGACATGTGAAGCTCTGACCACTGCGGAGGCCAGAGTCTGGATGGGGTGACAGTGTGGGCAGGTGACCCCATGGGTTAGTGGTTGCATGGGTGGGTGACCCCATGGGTTACTGGTCACATGGGCAGGTGACCACGTGGGTGGGTGGCCGAGTGGGTGGGTGACTGTGTGGGTGAGTGAACAGTTTGAGTTTCTGACCACATGGGTGGGTGACTGTGTGAGTTGATGACCCCAAGTGGGTGACCACATGAGTGGATGACAGTGTGAGTGGGTAATCATGTGGACAGGTGACCGCATGACCTCACAGGTTAGGGACTCCGTGGGTGGGTGAACACGTGGCTTGGTGGCCAGGTGGCTTAGTGACCCACAGGCTGCTGACCCCGTGGGTGGGGGACTATGTGAGTTGCTGACCCCATGGCTGGGTGACCTCCTGGGTGGGTGACCACGTGGGTTGGTGGCCACGTGGAGGGGTCACCGCATGGGTTGGTGACCATGTGAGTTGGTGACCACATGGGGTGGTTGGCCACATGACCCCGTGGGTTAGTGACCGCACACGAGGGCGGCTGGAGCCAGCACCGTGAACAGAAGCCCCTCTCTTGTCCCAG
Seq C2 exon
GCGGGCTGTTCGTGGCCGGCATCAACCTCACGGAGAACCTGGAGTTCATCCTCGTTCACCCGGCCTGGTCCCTGGAGAAGCTGACCCTGAGTGGGCTCCCCTACCTGTGCGCCTGGGTGCGGGCCCAGTGCCCGGGGTCGGCCGCCGGCTGCACCAACATCATTGCGGGCGACTTCATCGGGGCCAGCGGGTTTGTTAGCGACGTCATTGGGCTTAACCAGAAGCTGCTTCGGGGCTGACTGACGGCGCGCGGGTGGAGCGGGGCATCCCGGAGGCTGGTCCTCGGGCGCGTCCTGTGACGTCACCGGGCTGAACCGGAAGCTGCCTGGGGCTGACCGACAGCACGTGGGTGGAGCTGGCCATCGCGGAGGCTTCTCCTTGGTTGTGTCCTGTGACGTCACTGGCCTTAACCGGAAGCCGCCTGGGGCTGACAGACGGTGCGCCGAGGAGCTGGGCACCACCGAGGCTGTTGTCAGTCCTGTCCTGCGGGGCTGGTAATCCGTCCGTCCATCCACGGAATGTGGGTGGCTGCAGAGGTGGGGCCGGGTGGCAGGGTCCTCCGTGTCTCTCAGCGGATGTAGGGTGTGAGGTGATGATTAAAGGCGATGGTGTGATTTGTACAATCACATCTTCCAGGGAGACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000035144:ENSBTAT00000066297:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0038814=PI-PLC-X=PD(15.0=30.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
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:
GGTCATCCTGTCGTACGAGGA
R:
ATGACGTCGCTAACAAACCCG
Band lengths:
351-1301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]