BtaINT0042812 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004664 | COQ4
Description
coenzyme Q4 [Source:HGNC Symbol;Acc:HGNC:19693]
Coordinates
chr11:98931549-98933092:+
Coord C1 exon
chr11:98931549-98931680
Coord A exon
chr11:98931681-98932995
Coord C2 exon
chr11:98932996-98933092
Length
1315 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CCCATTTTTTTTCCTTTCAGACA
3' ss Score
10.81
Exon sequences
Seq C1 exon
GTGTTCCCTTCAGAGCCGTGAGCCATGGCACCGGCCTGCTCTACCCCGAACACATCCCCACCTCCGTGCTGCAGAAGGTGCTGCTGGCCGCCGGCTCTGCCGGGATGGCGCTGTACGATCCCTATCGCCACG
Seq A exon
GTGAGGCAGCCTGCGCTGCAGGCGCTTTACTGGGGCAACTAGGGATCCGGAGTGATGCTGAAGCTCCAATGCTTTGGCCACCTGATGCGAAGAGCCAACTCATTGGAAAAGACCCCGATGCTGGGAAAGATTGAAGACAGGAGGAGAAGCGGGGCACAGAGGATGAGATCGTTGGATGGCATCACCGACTCAATGGACATGAGTTTGAGCAAACTGCAGGAGATAGTGAAGGACAGGGAAGGCTGGCCTGTTGCAGTCCATGAGGTCGCTAAGAGTCGGACAGGACTGAGTGACTGAACAACAGCGGGGGTCCGGGGCCCGGTGTGCCCTTGCCTTGAAAGCCAGGCCATTGTCAGCCATTGTCAAAGCCTCCGCGTTTGCTTGGTTAACTGTAGATTAGACTAGGCCAGGGTACCCAAACCTGGCTGCAAGTTATAATCATCCGAAACATTCATAAAAATGTAGATGCCAGGGTCCCACCCTAAATTTACACAATTGGAATCTGCCAGGAGTGGGTAGGGGAGGATAGAAGGAAAGTGGGATCTGAGCTTCTGCCTTTTTAAACTGCTTCCTGGGAGATTTTGTTACCCAGACACACAGAACCTCTGGACTAGATAATTTATGAGCACCCATCAAATGATAACATCCTGTTAGCATTTGGGATCATGCATGGCACATAATAAATGCTCGATAAATGTTTGCTGGATGTTTTAATGGGACACTTTGGGATCCTACAGTGGTTTTCTCATGCCCTCTAGGATTCTTAGACCTGAAAGCACTGTTATTCTTTCCAGTAAAAATGATAGTGCTGACTGCTCACTGAGTCCTTATTTTACTTGCTCACTGTGTTAAGTGTTCTATATGTGCAACCTTCTTGACTTTTAACATTAACCGTAAGAGAAAGGTATTACGTGCACTTCACATATTAGGACCCTGAAGATTGGAAACGTGAAGCAGTTTTCACACAGTCACCTACATTGTGATCAAAATGGGGCTTGAACCGAGCACTGTCTGATACCAGAGTCTATCCATCCACAGAGACGTGACATTCTGTCCTGATGATGGATGTGAAAGTGATTTATTAACTCTTTGGAACATGGTGCTAGCCAGAGCCACCTCACCCCATTAGACTGATAACAGTAATAATTGTAGCCGTACTGAGCTTTACTGGGTGTCAGGTGATTCACTGTTTAACTTGAATCTTCATAACTAAGAGCTAGATACTCTTATCATATATGAAATTAAGGTTTAGACCAGGTCAGATAATTTACCTAAGATCATAGCCTCCATTTGTCCCCATTTTTTTTCCTTTCAG
Seq C2 exon
ACATGGTTGCAGTTCTGGGAGAGACCACAGGACGCCGTACCCTGAAGGTCCTCAGGGACCAGATGAAGAGGGATCCAGAGGGTGCCCAGATCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004664:ENSBTAT00000006120:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.364
Domain overlap (PFAM):
C1:
PF050198=Coq4=PU(28.6=66.7)
A:
NA
C2:
PF050198=Coq4=FE(30.5=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:
TGTTCCCTTCAGAGCCGTGAG
R:
CACCCTCTGGATCCCTCTTCA
Band lengths:
215-1530
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development