BtaINT0034603 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006984 | CD55
Description
Bos taurus CD55 molecule, decay accelerating factor for complement (Cromer blood group) (CD55), mRNA. [Source:RefSeq mRNA;Acc:NM_001030303]
Coordinates
chr16:5119008-5120209:-
Coord C1 exon
chr16:5120110-5120209
Coord A exon
chr16:5119094-5120109
Coord C2 exon
chr16:5119008-5119093
Length
1016 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TTCTTCCCTCATTATTTTAGATA
3' ss Score
9.45
Exon sequences
Seq C1 exon
AAAAATCATGTCCTAAGCCTAGAGAAATAGAAAATGGTCATGTCAATATAACAACTGACATACTACTTGGTGCAACCATCTATTTTTCATGTAACGCAGG
Seq A exon
GTAAGTCTGAGCATATGAAACACTATATTTAACAACTGGAAAGACAAATTAGAATTTAAGATAGAAACTTTTAGATTTGTGACAAGCAATAAAACCACCCTCTGCTCAATGATGAATTCATTGCAGTTAAAGTTAGTAAAATGGGGCAAGAAAGGAATATTTTTTATAATACCACCAAAATTCTCTCAATCACTAGATTTCATTATAAAGTTTTAACTGTGACTTGTAGATGAAAAAACTTGTGATAAGTTGATGATCCTTGGAGAAATTAAATCTTTTCAGTGTTGAAACCAGTCTTTACCTAAATAATGAGTTTGCATTTGTTTGTTTTCTTTGTACGCGAACAATCCGTTATAAGATATCAAGGGTTAAAAACAATCATTCCTAGTGTAAAAATATCATTCTGACCTAAGATCTTTTGTGAGTCCTCTATGTATGGGAAAGGAGTATTATCATTGAGGATTATCAGTGTTTCAAGTGCTGCTAAAAGCTTTATATTCATTTTCTCATTTAATATCTGTAAATTGGACTATGATATTTTATTCTGTGTGTGTGTCCCTGTTATTTATAAAGCTACCAGTATCATTTGTCTCCTGTACTAAACACAGATATTTGGATCATTAATAACAAATCTGGGGATACTTTGAACCCTTTAAATATAAGTACATTCTACTATTCTATGGAATCTGTATTGATCTTTTATAACTCAGAAATAGAAAAGATTTAAGCATCTGTATTCTTTAAAAACGTTTTAAAATATTTTAATATTTTCTAACATATGCCTTACCCAAATAAAAAATATTTTGCTTATCTTACACTTTTTTATCTTTGATGTCACCCTTTTAGATATAATTTTTTCTTTTCCTTTAAACTGCCAAATGAGCTTTTATCAACTATTGTTTTGTCTCTATCTACTGGTGTAACAAATATTGTAAGGCGCTATTCTGAAGGATTTAAGGGAAGTCAAATATGTGTGAGTGGAACTTAATGTTTTTTTTCTTCCCTCATTATTTTAG
Seq C2 exon
ATACAAATTAGTTGGTGCAACTTTTAGTTTCTGTGCTCCTGTGGGAAATACTGTTGGGTGGACTAATGAATTTCCAGAATGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006984:ENSBTAT00000009178:4
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=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PU(51.7=88.2)
A:
NA
C2:
PF0008415=Sushi=PD(46.6=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
AAATCATGTCCTAAGCCTAGAGAA
R:
TGGCATTCTGGAAATTCATTAGTCCA
Band lengths:
182-1198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development