BtaINT0007010 @ bosTau6
Intron Retention
Description
Bos taurus complement component 4A (C4A), mRNA. [Source:RefSeq mRNA;Acc:NM_001166485]
Coordinates
chr23:27186609-27187071:-
Coord C1 exon
chr23:27186862-27187071
Coord A exon
chr23:27186685-27186861
Coord C2 exon
chr23:27186609-27186684
Length
177 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCTG
5' ss Score
2.04
3' ss Seq
AGCCGCCTTAACTCTCCAAGGCT
3' ss Score
2.04
Exon sequences
Seq C1 exon
CCTCGGATCCACTGGAAGCACTGGGCTCTGAGGGGGCCTTGTCACCAGGAGGCCTGGCATCCCTCCTGAGGCTTCCCCAAGGCTGCGCGGAACAAACCATGACCCTGTTGGCTCCAACACTGGCTGCTTCCCGCTACCTGGACAAGACAGAGCAGTGGAGCATGCTGCCCCCTGAGACCAAGGACCGCGCCGTGGATCTCATCCAGAAAG
Seq A exon
GTTCTGAGTGTAGCGACTAGCAGGACTGGGGGCCAGGGGAGGGCAATTAATGGAAGCTGGGCAGCCCAGGTGGTCAGGGCAGGGAAGAGAGATGTGGTCCCCAGTGGAAATGGGGAGCATGGCCTGACCACAGCAGTAGGGGAGTGGGTGTGACCTCAGCCGCCTTAACTCTCCAAG
Seq C2 exon
GCTACACACGGATCCAGGAGTTTCGAAAAAGAGATGGTTCCTACGGGGCTTGGTTACATCGGGACAGTAGCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000037533:ENSBTAT00000009019:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105694=Thiol-ester_cl=WD(100=43.7),PF076789=A2M_comp=PU(0.4=1.4)
A:
NA
C2:
PF076789=A2M_comp=FE(9.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
CTCTGAGGGGGCCTTGTCA
R:
CTGTCCCGATGTAACCAAGCC
Band lengths:
252-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]