BtaINT0155294 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006969 | TUBB5
Description
Bos taurus tubulin, beta class I (TUBB), mRNA. [Source:RefSeq mRNA;Acc:NM_001046549]
Coordinates
chr23:28101727-28103351:-
Coord C1 exon
chr23:28103241-28103351
Coord A exon
chr23:28102960-28103240
Coord C2 exon
chr23:28101727-28102959
Length
281 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
GCCTTATAACCTCATCGCAGGTC
3' ss Score
7.11
Exon sequences
Seq C1 exon
GTGGCAAATATGTCCCTCGTGCTATCTTGGTGGATCTAGAACCCGGAACCATGGACTCTGTTCGCTCAGGTCCTTTTGGTCAGATCTTCAGACCAGACAACTTTGTTTTTG
Seq A exon
GTGAGTTAGGGAGATATCAATAGATACTGCTATTCGAGTTATTTGGGTGCAGCAAGAGTTAGAAATGATTGTACTGGAGTTTATACAGCCTTGTGTTTTTAAATCTAATGAAGAGTGGAGGTAGTAATTTAGATAGTAAATTATACAGGGGCAGATATATCATCGGGGAGTTAAGAAGGAAGATAAATCCACTGGCTGTAATCCAAAAGTTGAAAGGTAGAAATGGGGCTGTGTATCTTTCACACTTGACTGAACAAGCTTGCCTTATAACCTCATCGCAG
Seq C2 exon
GTCAGTCCGGGGCAGGCAACAACTGGGCCAAGGGCCACTATACAGAGGGAGCCGAGCTGGTTGACTCGGTCCTGGATGTGGTTCGGAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGCTTCCAGCTGACCCACTCGCTGGGTGGGGGCACTGGCTCCGGAATGGGCACCTTGCTCATCAGCAAGATCCGTGAAGAGTATCCCGACCGCATCATGAACACCTTCAGCGTGGTGCCCTCACCCAAAGTTTCCGACACTGTGGTTGAGCCCTACAACGCCACCCTCTCTGTCCATCAGCTGGTGGAGAACACTGATGAAACCTACTGCATTGACAACGAGGCCCTTTACGACATATGTTTCCGCACCCTCAAGCTGACCACACCAACCTATGGAGACCTGAACCACCTCGTCTCGGCCACCATGAGTGGAGTCACCACTTGCCTCCGCTTTCCTGGCCAGCTCAATGCTGACCTCCGCAAGCTGGCCGTCAACATGGTGCCCTTCCCACGCCTCCACTTCTTCATGCCTGGCTTTGCCCCTCTTACCAGCCGTGGCAGCCAGCAGTATCGGGCCCTCACTGTCCCTGAGCTCACCCAGCAGGTCTTCGATGCCAAGAACATGATGGCTGCCTGTGACCCCCGCCATGGCCGGTACCTCACCGTGGCTGCTGTGTTCCGTGGGCGGATGTCCATGAAGGAGGTAGATGAGCAGATGCTCAACGTGCAGAATAAGAACAGCAGCTACTTCGTGGAATGGATCCCCAACAACGTCAAGACAGCTGTTTGCGACATCCCACCCCGTGGTCTGAAGATGGCAGTCACCTTCATTGGCAACAGCACAGCCATCCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACGGCCATGTTCCGCCGGAAGGCCTTCCTCCACTGGTACACAGGTGAGGGCATGGACGAGATGGAGTTCACCGAGGCTGAGAGCAACATGAACGACCTCGTCTCCGAGTACCAGCAGTACCAGGATGCCACCGCAGAAGAGGAAGAGGATTTCGGTGAGGAGGCCGAAGAGGAGGCCTAAGGCCAAGTCCCTATCACCTTAGGCTTCTTAATCCCCTCAGCCTTCTTCCTCAACGACCCCTTTCCTCTCCCTCAGAATTTGCATTTTCTGCATCTATCTTGTTTTTCTTTTTTGGGGGGGATTCTAGAACAGTGCCTGGCACATAATAGGCGCTCAATAAATATTTGTTGTTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006969:ENSBTAT00000009158:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.1),PF0395312=Tubulin_C=WD(100=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAACCATGGACTCTGTTCG
R:
CCACGCTGAAGGTGTTCATGA
Band lengths:
299-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]