BtaINT0070146 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000704 | GUSB
Description
Bos taurus glucuronidase, beta (GUSB), mRNA. [Source:RefSeq mRNA;Acc:NM_001083436]
Coordinates
chr25:28164810-28166864:-
Coord C1 exon
chr25:28166688-28166864
Coord A exon
chr25:28164946-28166687
Coord C2 exon
chr25:28164810-28164945
Length
1742 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CTCTCTGCCTTGAATTCCAGGAT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GCGCCGTACGTGGACATCATCTGTGTGAACAGTTACTACTCCTGGTACCACGACTATGGGCACATGGAGGTGATTCAGCTGCAGTTGGCAACCCAGTTCGAGAACTGGTATAAGGCCTACCAGAAGCCGATGATTCAGAGCGAGTACGGAGCAGATGCCATTGAAGGGTTTCACGAG
Seq A exon
GTAAGTGCATCGAAGATGGGAGTTATTTTTTCCCTCTCTCGGACAGTGATGTCAGTCATCACGGCCCCAGACTAGAGATCTGCCTCTTTCCCTGTCCCTCCCTTGTCCTGGCCACCTCCCACAGCTAACCAGGCTTTCCCTAAGCCGCCTCTCCACACGGCCGGCCCGGACTCAGCCTCTGTTCCATGTGCATGGTCCTCAGATAGCCTCCCACAAGCTGCCCAAGTGGTCCCTGGAACAAATCCAAGCCTTGTCCTGTCCCTGGCTTTCCCTGACCCCACAGGACGAAGCCGTAATCTGTGCTCGGGGCTGTCCGCGTCCTCTGCCCTCTCCCAGGCCTTCAGTCCCAGATCCTAGTCTGTTCTGTTTGGTGGCTCCTGTGCTGGCCTGGCCTCTTCCTTCTGCCCAGGAAGCCCTTCTTAGCTCCATAACCCCAGCTAATGGAACTTGACTCAGCGGTCATGCTTCAGCTCAGGTGTCCACTCTTTGGGGAGGAGGACCCCACTTAGCTGGGCAGAGGAACACCGTGAGCTGTCATGCTCTCTTTGGTTCTCTCCTTGACCAGACCAGGGGCTCCAGGAGGGAGATTAAATTGTGTTTCCCTTGGCTTCCTTACAACTCCACAGTTGTATCTGCAGTGCATCCTGTATAATAGCGTTTTAATCCTCCTCGTTGGGAAGGAGGACCAAAGCCAACAGGGGTTGGTTCTCTTGTAAGATGACTGCAGTGCTGCATCCTCGTGCGTCAAAGACCCAGCACCCCCTACAAACTCCCATGAGATGAAAACGCAGACCTTAAGCTCTAAGAACAACTCAAAGATCATTATATCTTAGCACATGACAGACGTGAGCTCTTCTCCGGAGACTGAGTCCGTAGATGTGACCTCTGCTTTTCCCCTCCTCACCTGGCAGGTCTCAGCTTCATTGAAGCTTTCTGTGGCCCCCGCCTCTGTCTGCGCCCCCTACTAATTTCCTCCTACCCGCCCCCCACACACTACATGCTCCCAATTCACCCTTGTTACACTTCGAGCTTGTGTCTTGCCAGACTGTAAAGCCCATGAGGACAGGGACCCTATCTTTCTAGTTTCTTTGCCTCTAATGCCTGGCATATAAGCAGATGCTAAATAACGATTTGTTCAATAGTCAATGGGCTAAATAGCAGTTCCTTACCTAGATGAGATACAGGGGAATTGGAGTGAAGTTAAAGCTGAGTCACACCAGTGCTCAAATTATGCATTGGCAGCTACTTCAGCCTTGGGTTTTAAATTTATTATGCAGAGATGTATTTTTATTCCTAGTGTAGTTCAGTTGTAAGACTGCAGTGGGAAATAGAAGTGGAAAAAAGTAAAGCAAATATTAAATTCTGTTTAATGGGAATTCCCTGGTTGTCCAGTGGCTAGAACTTGTGCTTTCATTGCCGAAGGTCCAGGTTCAATTCCTGTTTGGGGAACTAAGATTCCACCAGCTGCTTGGTGTGGCCAAAAAAAAACCCCACAAATTCTGTTTATAAATAAAGAAGTTACTAATTAAGGTGGGGTTGTTGCTGTTTTTTAAACCTTTTTTTTTTTTAACCCTGGGCTACATCACACACTGGCTTGGCCCTCCACCAGTATCAGCAAGTCCTGCAGGCACTATAGCCCACCACAAGGACAGATATTTTGGTCATCATCAGATGGATCTTTGTCTAAGTTTGCAGTTTTGCTGGTTGTGACTCCTAACCTCTCTCTCTGCCTTGAATTCCAG
Seq C2 exon
GATCCACCACTGATGTTCAGTGAAGAGTACCAGAAAGGCCTGCTCCAGCAGTATCATGTGGTTCTGGACCAAAAACGCAAAGAATATGTGGTTGGCGAGCTTATCTGGAATTTTGCTGATTTCATGACTAACCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000704:ENSBTAT00000000941:10
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:
PF0283612=Glyco_hydro_2_C=FE(19.1=100)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=FE(14.9=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:
GCCGTACGTGGACATCATCTG
R:
ACTGGTTAGTCATGAAATCAGCA
Band lengths:
311-2053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]