BtaINT0042501 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012678 | COLGALT1
Description
Bos taurus glycosyltransferase 25 domain containing 1 (COLGALT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001098955]
Coordinates
chr7:5476402-5476658:-
Coord C1 exon
chr7:5476582-5476658
Coord A exon
chr7:5476509-5476581
Coord C2 exon
chr7:5476402-5476508
Length
73 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
ACAGAGGCTGTGGGCCGCAGGTC
3' ss Score
2.1
Exon sequences
Seq C1 exon
TGAAGCACCCACCCTCGGAGCCCTCGCGGTTCATCTCAGTGCCTACCAAGACGCCAGACAAGATGGGCTTTGACGAG
Seq A exon
GTAGGCCGGGCCTTCCCTCGGGGTGGGGGCCGGGGGCCAGCCCAGAGGGTACAACAGAGGCTGTGGGCCGCAG
Seq C2 exon
GTCTTCATGATCAACCTGAAGCGGCGGCAGGACCGGCGGGAACGCATGCTGCGGGCCCTGGAAGAGCAGGAGATAGCGTGCCGGCTGGTGGAGGCTGTGGATGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012678:ENSBTAT00000016841:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.8=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:
GAGCCCTCGCGGTTCATCTC
R:
TTGCCATCCACAGCCTCCA
Band lengths:
167-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]