BtaINT0042493 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012678 | COLGALT1
Description
Bos taurus glycosyltransferase 25 domain containing 1 (COLGALT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001098955]
Coordinates
chr7:5492210-5493984:-
Coord C1 exon
chr7:5493692-5493984
Coord A exon
chr7:5492321-5493691
Coord C2 exon
chr7:5492210-5492320
Length
1371 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CTGTCCTGCTCTGCCTACAGGGT
3' ss Score
10.96
Exon sequences
Seq C1 exon
AAAAGCGGCTTAAAGGCGACTCGTGGCGCGATGGCGGCGGCCCCACGCGCGTGCAAGGGACACGGGCGGCCGCTCCCGGTACTGCTGCTGCTGCTGCTGCTGGCGCTGCCGCCTTTGGGGGGCCCGCCCGGCGCCGCCGCCTACTTCCCCGAGGAGCGCTGGAGCCCTGAGTCGCCGCTGCAGGCGCCGCGAGTGCTGATCGCGCTGCTGGCGCGCAACGCGGCCCACGCGCTGCCTGCCACGCTGGGCGCGCTCGAGCGGCTGCGGCATCCGCGGGAGCGCACGGCGCTGTG
Seq A exon
GTGAGCGCGGTGCCCACCGGCTCCGCATCAGGCCTGCTGTCCCCGTCCCGGCGGGTCCACGCCGCGCCTTGCTCTCTGTCTTCGCATTGGGGAGGGCGGACCAGACCCACGCGTGCTCTCTGCTTGCTGTCTCCTTCGGGCGGGCGGGCCAGAACCGCGCCGCGCGCCCTGCTTGCTGTCCCGCATCAGAGCGGACCAGAGCTGCGTGTGCCTTCCTGCCTGCTTTTCTCCGCCGCGTTAGCACCGGCGGAACCGCGCTGAGCCCGCTGGCCCCTTTAGGGTGGGGCGAGCCACTGCTCTGCCGCCTACTGGCTTCCCTGCCCCCACTCCCATTAGGACATATCCGGGATCACCCGTGCCGCGCAGCCCGAGACTAACCCCTTAACCCACTTGGGAGCACTCACAGCTTGAAAGATGGGAAGCCTGAGAACCACCCCCTGCATTGGGGCGTTGCCATGGCCCACATTGCACTTCTACTAACTGAACGTCTTTTCGCTCCTGCTGCCGTTTTGATCCCTGAGCCCAGCCTCAATCAGACTTCCTGCCTCCTGAGTACTGGAGTGGGTGGGTGGGGTGCCCGGCGGCTGGCGGAGGGTAGGGGGGGAGCAGATCCTTCCTGGAAACGGAATGGGGCAGGGCCAGGAACAAATCTGGCTGGTGACTCATTGCTTCCTACCTCAGTTTTCTCTTCTGAAAAGTGGGGATACTAAGATAACTCTGATTGAGTTGTTTTTGAAGATGAACCAGTTAATGAGTGTGAAGCCCTTGTGCTGGGTGGGCATCAGTGACCCGACTTGTGAATATTATAATAATAATTTTGTTCGATTTTGTTGTTATTACTGTCATCAGTGTTGTTGTTGTTGTCAACTAAAGAACAATTCATTTCAGAGAATAGTTCTCGGCTGATGGCTTCCAAATATTCCTTTTCCCTCCAGTCCAGATAATCCAAGCACTTAGTTGGTGCTTAAGAAATGTTTCTTGAATGAGTGACAGCAACCCCACTACTCACAGGAGAGAGTTGAAGAAGGCAGGACCGGACTGTGTGATATAAATGTATTTTTACTAAATTGTTCATATTTAGTAGCGAATATGGTTGTAAGATCCTAGATGCCCTAGAATACTGGCATCATGTCTAATGTGTTTTTCCAAAATGATCTTGTAAAATAGTCCCCTCTGCAACTCAGGGAAGTGGGCCCAGTCCTCACCCCCTGTGTTACAGATGAGGAAACCGCCGTGGTGGGGGGCGTGTCATGCCCAGGGCTGTGTCGCTGGTGTGAGGCCCAGCTGGTGTGTGGCAGCCCTTGGGGCCTTCCTGCTGCCTGTCCTGCCTCCGTCTCCCTCGCTTCACTCCCTGTCCTGCTCTGCCTACAG
Seq C2 exon
GGTGGCCACAGACCACAATGCAGACAACACTTCGGCAGTGCTTCGGGAGTGGCTGGTGGCTGTGAAGGGATTGTACCACTCTGTGGAGTGGCGGCCATCGGAGGAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012678:ENSBTAT00000016841:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.132
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=PU(21.5=29.5)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(30.6=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:
CTTAAAGGCGACTCGTGGCG
R:
CAATCCCTTCACAGCCACCAG
Band lengths:
358-1729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]