BtaINT0042495 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012678 | COLGALT1
Description
Bos taurus glycosyltransferase 25 domain containing 1 (COLGALT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001098955]
Coordinates
chr7:5471576-5473537:-
Coord C1 exon
chr7:5473331-5473537
Coord A exon
chr7:5473151-5473330
Coord C2 exon
chr7:5471576-5473150
Length
180 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGA
5' ss Score
1.71
3' ss Seq
ACCCCGCTCCTCCCCTGCAGGTC
3' ss Score
13.31
Exon sequences
Seq C1 exon
CTACGTGGGCCGGAAGCGGATGCAGGTGGAGCACCCTGAGAAGGCTGTGCCCCGCGTGAGGAACCTGGTGGAGGCCGACTACTCGTACTGGACCCTGGCCTACGTGATCTCCCTGCAAGGCGCCCGCAAGCTGCTGGCTGCCCGGCCGCTCTCCAAAATGCTGCCGGTGGACGAGTTCTTGCCAGTCATGTTCGACAAGCACCCAGT
Seq A exon
GTGAGAGGGGGCAGCAGTGGGCAAGGGGAGCTGGGGTCTTGCTGTGCAGCTGGCCTGGGTAGGGGGCGTGAGGCTCGCGGGCCCCAGGAGGGGGCTTCTCTACCGCTTCCTTCATGAGTCCCCTTCGCCACGCATTTCTGTCTCCATCTGCCTCACCCCCACCCCGCTCCTCCCCTGCAG
Seq C2 exon
GTCTGAATACAAGGCCCACTTCTCCCCTCGGGACCTGCGCGCCTTCTCCGTGGAGCCCCTGCTCATCTACCCCACGCATTACACAGGGGACGACGGGTACGTGAGCGACACAGAGACCTCAGTCGTGTGGAACAACGAGCACGTCAAGACCGACTGGGACCGCGCCAAGTCCCAGAAGATGCGGGAACAGCAGGCCCTGAGCCGCGAGGCCAAGAACTCCGACGTGCTCCAGTCCCCGCTGGACAGTGCCGCCCGGGATGAGCTCTGAGAGCTCTGAGGGGCGGTGGCCGTGGAGCCAAAGCAGCGGTCGCTGGCCTGGCCCCCACACGCCCACTGGGGACGGCGGGGCCCCTCTGGCCCCTGGCAGGCCCCGGAGGGCTCCCCGCACAGGGCAGTGTCCAGCCGGCTCTTGCTCAGCAATCACGTGCACGCAGGCAGCATTAATGGAGTGCCTACTGTATGCCAGGCGGACTGGGTGGGAACTGTTCATCTCTGGGTGCACCCAACACTTGGATTGGTCACAGGGTGCCAGGTTCCCTTGCTCTGGCAGTGAATGAGGTTTGATTACTCCCTCCATCAGTGATGGAGTCAGTCATCAAGCGTTATCGATCTCCCGTCAAGAATCACGCCCTAGTGATACACATTCACTGTTTCAATTCATGCGAGTATTTATTGAGTGCCTACTGTATGCAAGGCACCATCCCAGGCTCTGGGACAAGTGAGGCAGACTTCCACTTATTTGAACACATACTGAACACCGACTTTGTGCCCGGTACTTGTGACACAAAAGCTCTTACTGACTCGGTGCATTTATGGAGTGCCTGCTGTGTGCCGGGAGCTGAGCGTGGTGCTAGGGCTGAAGATAATCAAGGTGCTTTTCACTCTAATTGGTTTCTTCTCCACACATCCAGAGAGCATCTCCTGCAGTAGTGATGCAGAAAGCAGGATGACAGCTGTTCAGTCACCATTTGATACCCCCACAGAGATAGATGAGTCCTTCCATTTCTTCATGCAGCAAGCACTTATTGAGTGCCTGCTGTGTGCCTGACCTCGCGGGCTCCCGGTGGGGCTGAGTTTGACTCCTCTGGTGCACCACCCCCGTCACCTGGAATGTGTGTATATAACATCCCCCCCGCCACTGCCCAGGAGCAGGGGTGACTCTTCCCTCAAGAGGGAGAGCCACGTGTTTCCGTGACCCCATGTCCTCTTGCAACGCTCCCCTAGACCCAGCCCCCCTGGAGGGAGTGAGGACGCCCCTGTCCTCGGTTGCTTGGCCGCCCTGCCCTGCATCTCAGGTGTGGTCTACCTGCTTGATGGCATTCTTTTGTCCAAGCCTCTGGTGGGATCATGTGTTTGGGGCCTCGGACAGGCTCTGCTGCACTGGGGCGCTCTCCATGGCCTGGGCAGGACGTCCCCCAGCACAGCCTGGAGGACTCACCGTGCCTTCAAGCCTGAGACGAATGTCAGAACCGGCCAGCAGTGCCTTGTCCTCTGAGGGGTAACTAACTGCTGTCCCGGTCAGGTCCTGGATAACTTGCTTATTTTTTTATTAAATGTTCCTGGTTGGGTTTTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012678:ENSBTAT00000016841:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.371
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(32.3=85.7)
A:
NA
C2:
NO
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:
CTACGTGATCTCCCTGCAAGG
R:
TGTTCCACACGACTGAGGTCT
Band lengths:
242-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]