BtaINT0042503 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012678 | COLGALT1
Description
Bos taurus glycosyltransferase 25 domain containing 1 (COLGALT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001098955]
Coordinates
chr7:5474306-5476144:-
Coord C1 exon
chr7:5476012-5476144
Coord A exon
chr7:5474434-5476011
Coord C2 exon
chr7:5474306-5474433
Length
1578 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
CAGTGGGCCTCCTCCCTCAGGTT
3' ss Score
7.23
Exon sequences
Seq C1 exon
AGCCATGAACACCAGCCAGGTGGAGGCTCTGGGCATCCAGATGCTGCCAGGCTACCGGGACCCCTACCATGGGCGGCCCCTCACCAAGGGCGAACTGGGCTGCTTCCTCAGCCACTATAACATCTGGAAGGAG
Seq A exon
GTACGTCTGGCAGGGGGTCAGGACCCTCCTTAGCCCTTGTTTTTATTTAAAAACATCTTATGTATTATGATTTTTATGTATTTGGCTGCATCTAGTCCTAATTGCAGCACTCAGAATCTTCCCTTCACGTGGGGGCTTTTCCTTGCAGCTGGGGGATTCTCCAGTTGCGGCACTCGGAGTCTCTAGTTGGGGCTCGCAGGCTTAGTTGTCTCACGGCATGCCGTATCTTAGTTCCCCGACCAGGGATCAAACCCGTGTCCCCCTGCTTTGCAAGGCAGATTCTTAACCACTGGACCACCAGGGAAGTCCCCTCCTCGGGCTTCTTAACAGCTCAGGGAGGGAATCCCCTGCACCCCAGGCAGGCTTCCAGAACCACTGCAGGACACTCAGCCTCTCTCCTTGGGTGAATGTGGCCCCTGAACCCCAGGTGGGGCAGCTGCCATCCTCCCACTGTGCAGATGTGAGTCCTGAGTCTGAGGAGGGGTGAGCCTGACTCTAGAAACGGTGGGGTCTGAGGCCCTGGACCTCCAAGTGAAGCCTCTTCATACCCAGCCACTGTCAAGTATCTAGAGTCTGGGCACCGTGCTCAGAGCTTACTAATTGGAGCACCAGCCATGGTGATGTTAACTAATGCACACCCCACACATTGGTATCCCATTAGCCACAGAGGCTCATCAGACACCCTGGGAGGGAAAGGTTATGATGGGCGAGGATGCCAGATGGGGCTTCGAACCTGGAACCGTCCAACTTGAGGCCAGATTTGGTATTTGAGGCAGTGCATTCTCGCCCAGGTTGCTCTCTTTTTCTGACATTGATCATGGAAGGTACGGGGCAAAGGCTGCGGTGTCCAGGCAGCTATGGAGCCAGAGGGGATCCAGGTTCAAGTCCAGCCCTGCCTCTGAGCGGGGTGAGCTCTGTGAGCAAGGAAGGCATTTCCCAATCTCAGCCTCGTTTTCCCAGATGAAGAAGACAGAGTCTTCTTCAGTCATGAAGCTTATCAAGTTCATTAGTTCACGGAAGATTTGTCAAGTACTGACTGCGTGCCCAGCCTGGTGCTGGTCCAGGGGACACGACAGCCCCCAAGACACACCCAGCTCCCCACAGGGGATTCACAGCCCTGGGAGCTGGGGAAACTGATGCTAAACCACAGAGAAATGACTAACGTTGAAATGAGTGAGAGGCACCTACAGGAGAGGTCCAGGGTTATGAATCGTCCTCAACTAGCTGCTTTGGGTGATGGTCACGAAGGATCTCTTTAGTTGACATTGGAACTGAGGCCAGCAGGGTGAGAGGGATCCTGCCTGCTGCTGCATGGGAGAAGGGTGCTCTGTATCAAAGGCACAGGGCAGGCCCAGGCCTAGGCCCTGGGGTGGGAAGGGGCAGCCAGGCTGAGGCTGTGGAATCTGCTTCCAAGTTGTAAGGAGAAGGTTTTGGCCAAGAGGTAGATCTGAACTTCTGGTGGTATGTGTGTGTGTGTTTTGCTTTTTTCCTGGTGCCCCAGACCTCTGAAGCAGAACTGGCTTTGGGGTCAGGCCTGGGCTTGATTTGTCCAGGATCTCAGTGGGCCTCCTCCCTCAG
Seq C2 exon
GTTGTGGACCGCGGGCTGCAGAAATCACTCGTGTTTGAGGATGACCTACGCTTCGAGATCTTCTTCAAGAGGCGACTGATGAACCTTATGCAGGATGTGGAGCGGGAGGGTCTGGACTGGGACCTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012678:ENSBTAT00000016841:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=FE(23.7=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(22.6=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:
GCCATGAACACCAGCCAGG
R:
GTCCCAGTCCAGACCCTCC
Band lengths:
255-1833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]