BtaINT0028813 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021583 | C24H18ORF10
Description
Bos taurus tubulin polyglutamylase complex subunit 2 (TPGS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102244]
Coordinates
chr24:20634331-20636103:+
Coord C1 exon
chr24:20634331-20634444
Coord A exon
chr24:20634445-20635942
Coord C2 exon
chr24:20635943-20636103
Length
1498 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCTTCTGCCTGCTGTTTCAGGAT
3' ss Score
11.15
Exon sequences
Seq C1 exon
CCAGTGAGAACCATCCAGAGAAGCCTCACTTTGATTCTCGCAGTGTGATATTTGAGTTGGATCCTTGCAACGGGAATGGGAAGGTTTGCCTCGTCTACAAAAGAGGGAAACCAG
Seq A exon
GTAAGGATCATGGCAGGAGCAGTTCTGTAGTTTGGGAATGGCCTTGGCTGACCTTGCCCTCCAGCCATCACACAGAAGACACGCTCCTCCCTGACCTCCTGAGCTGCTGCAGGGTCTCGGGTAGATGCCAAGAGAAAGCCCCTTAGGTCCTCTCTGAGCCACCCCCTCTCCAAGCCCATTACTGGAGTCTTTTTAAGGTACTGTCATTTGTGAGTTACTGCAGAGTAATAAGATTAGGATAATAAGTGAATAAAAAGTAAAAGAAATAGTTACTCTGTTTATAACTCCTCTAGCTCGTTCACGTGTTAGATAAGCATCCAGGAAAAGCATTGTCTTATACTTCTTTATGAAGGGTGTCTAACTAATAAAAACCTGAATTACTAGACCTCAGTCTAAGAGGAAAAGGCTCTGGCCTCCTGTGCAGTGGCCACCCCATGACAGCAGCTCAGTCCCAGAGGTGGACAAGGCACAGCCCTCTTTGGGTACCTCTGCCTGGAAGGGGTGAGAAGACACACCAGGATTTACCTCCGGGTGAAGGAGAGACCATCTCCTGCTGGAGGGGTCTTTGTGAAGCAGCCTTTGAGCTGCATCCCGAAATATGGGTCAGAATGAGATATGGGTGGTGAGGGTGGGGCAAAAGGGGGCATCACGCAAGAAATGGGTAAAAGACATGCCATGGGACAGTGCAACTGATTTGGGGGGAATGACAGGTAATTTTAGTTCGTTGGCCACTTGATTCATCTTGTGGATGAGGGGAGATGATGCCAGAAGCCCTTCATGCCGAGTTTTGAAAGCCAGGTGAAGGAGTTTGGACATTCTGTGGAAGTATGGGGGGAGTCAAGGTTATTTAGCACAAATACGGCAGGATTCAAGTGAAAGTGTGACCACAAGTAGAACTAGAAGAGGAAGTTACTGGAGGATGGATGCCATTTAGGGAGATGTCACAGCCATTAGAGAGGAGATGAGATGAGGGGATGAGCTAGGAGAGACCTCCACAGTGGTAAGTAAGGATGGATGGTCAGAAGCAAGTGAGAGGCAGGAGCTTCAGCTCAACCAGCACAGCACTGCACAGGCAGGAGTCCCAGGAGAAGGGCAGAATCCTTCTAATTCCTGCCAGACCTCCTGAGAAAGCCAGGGCTGCTCAGAGTGTCTCTCCATCAGGAAGGCTGAGCCCACAGCCTGTAGCTGCTGGGCGAGGGGAAGCATCGCGTCCACGCAGGAAAGCAGTGCTGCTTAGGCAGCCTGAGTGCACAGATGGCCAGGGCCCAGCGATAGGTCAGTTGGCTGACTGATCAAGAGCTCGTAAAAGAACACCAAAGAAGCCTTGACAGTGGCCCCTGGAGAACAGAGCTGGGAGGTTGGAAGGGAAAACTGGAAACTTTTACATTCCTTCTACTGTTGAAATTTGTTTTAACCATGAGTAGATGTTGACTTGATAGATAAAAGGACAGAAGTGTTAAGCCATCCCTTCCTTTATGTCTTCTGCCTGCTGTTTCAG
Seq C2 exon
GATTAGCACAGGACACTGAGATCTGGTTCCTGGACAGAGCGTTATACTGGCATTTTCTCACAGACACCTTTACTGCCTATTACCGCCTGCTCATCACTCACCTGGGCCTGCCCCAGTGGCAGTACGCCTTCACCAGCTATGGCATTAGCCCCCAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021583:ENSBTAT00000028761:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=FE(20.5=100)
A:
NA
C2:
PF093465=SMI1_KNR4=FE(28.6=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:
CAGTGAGAACCATCCAGAGAAGC
R:
GCTAATGCCATAGCTGGTGAAG
Band lengths:
262-1760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]