BtaINT0056239 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012484 | ENDOG
Description
Bos taurus endonuclease G (ENDOG), mRNA. [Source:RefSeq mRNA;Acc:NM_175823]
Coordinates
chr11:99316478-99318324:+
Coord C1 exon
chr11:99316478-99316587
Coord A exon
chr11:99316588-99317978
Coord C2 exon
chr11:99317979-99318324
Length
1391 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTGCCTGGGTCTGCTTACAGGAC
3' ss Score
8.25
Exon sequences
Seq C1 exon
GTGCCACACCTCAACCAAAATGCCTGGAACAACCTGGAAAAGTACAGCCGCAGTCTGACCCGCACCTACCAAAATGTCTATGTCTGCACCGGGCCACTCTTCCTGCCCAG
Seq A exon
GTAAGGCTAGAGCTGGGGTGGCCTGGGGACAGTGGCACCTCCCGGTCACCCCACCCAGGCTCCCCCCAGGCTCTGTGTCAAGACCGCTAGGTCCCCATTCATCTGGTTTCTGGGCAAGTCTGTCCATTCCTTACCTTGAGCCCCCGATTCTACTCTACAGAGAACCTTGGGGTACCCACATCTCTGCCTGTGTGTACCAAGCCCTGAATCTGCCCTTGTTCCTCTCCTATATCATCGCTTGTCACAGCCACCTAACTCATGTTCTGCCCAGATAGCAACCCTTGCATGGGGTTCTCACCTTCCGTCTCCTCTGCTGGGGGCATCCCTTCCTGAAGCCAGCTTTGAACTCTGTCTTCCTGACGCTGAGCCTTCACTCTTGTCCCTGTGCAGCTTGCCTGGCCTCCCAGATGGAAGGACTGAGCTCCCTGGGCTTGCTGGATGATTTTTCTGCTGAGGACTGGGATGAGTGAGGCAAGGGACTGTGGCCAAGCAGCTGGCTCTGCTGGGGTCGGAACCCAGGCCCTGTCACCTAGTCTCTGGGCTTGATTTTGTTTAGTCGCTCAGTTGTGTCTGACTCTTGTGATCTCATGGACAGAGGAGCCTGGTGGGCTACTGAAGCCTGCCAGACTCCTCTGTCCATGGGATTTCCCGAGCAAGAATACTGGAAAATTGCCATTCCCTTCTTTAGAGGATCTTCCTGACCAAGGGATCAAACCCACATTGTCTTGCATTGGTAGGCGAGTTCTTTACCACTGAGTCACCAGCAAAGCCTCAGTCTCTGGGTGCCCTGGGCAAACAACCTCAACATCCTCTCCTGTAAAATGGGGATAATACCTGTTATCTACCAGATGGTTGTTTAAGGGACAGTGGGATGGTGGATGTCACCCTAGTAAGGACTCAGCACAGGCTTGCGGAGGCACTGATACACTTTAATTGGGCTGCTGAAATGGAGTGGACTCCTCGGAAACTTAGCCAGAGTCACCTGTCCAGTGTTCTGGGCACCTGCTCTGCCCCAGGCCATGTGCTGGTGCTGGGCATTCTGCTGTCACATCCTCCACCTCCACAGGGAGAGACAGACATTAGTCAAGTGCCCACAAGGAGGATGTGAATGAAGGCCCGATTCTTTCTGCAGTGTTTATTGCCACCACCCACTCTCCTTGAACACAGTGTCGGACATGAGGAAACAGGGGAGGAATGAGTCTCTACCCTGCCGGAGCTCCCAGTCTCCTGGGTGAGCCAAGCAAGGCAGAGAAGCCTCATGCGGAGAGGGTGGTCCTGCAGGTGACACAAACTGGAGGTCCAATCAGGGAAGGCTTCCTGGAGGTGGTGGCCTTGGGTCTGAACAAGCCCCTGGGAGTCCTGAAAGGCCATGTGCCTGGGTCTGCTTACAG
Seq C2 exon
GACGGAGGCTGATGGGAAGTCCTACGTGAAGTACCAAGTCATTGGCAAGAACCACGTGGCGGTGCCCACCCACTTCTTCAAGGTGCTGATCCTGGAGGCGGCAGGTGGGCAGATAGAACTCCGCTCCTATGTGATGCCCAATGCGCCGGTGGATGAGGCAATCCCGCTGGAGCACTTCCTGGTGCCCATTGAGAGCATTGAGCGGGCCTCCGGGCTGCTCTTTGTGCCAAACATCCTGGCACGGGCGGGCAGCCTGAAGGCCATCACTGCTGGCAGCAAGTAAGGGCAGCCCCAGCTGGACTGTGGGCTTGAGGGGCTGAGTGAACTGAAAAGTCCTTATTTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012484:ENSBTAT00000016564:2
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:
PF0122318=Endonuclease_NS=FE(17.2=100)
A:
NA
C2:
PF0122318=Endonuclease_NS=PD(38.8=85.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
CTGGAAAAGTACAGCCGCAGT
R:
CAGCAGTGATGGCCTTCAGG
Band lengths:
349-1740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development