BtaINT0028814 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021583 | C24H18ORF10
Description
Bos taurus tubulin polyglutamylase complex subunit 2 (TPGS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001102244]
Coordinates
chr24:20635943-20639449:+
Coord C1 exon
chr24:20635943-20636103
Coord A exon
chr24:20636104-20637424
Coord C2 exon
chr24:20637425-20639449
Length
1321 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCCCAAATCTGCCTTACAGCAA
3' ss Score
7.78
Exon sequences
Seq C1 exon
GATTAGCACAGGACACTGAGATCTGGTTCCTGGACAGAGCGTTATACTGGCATTTTCTCACAGACACCTTTACTGCCTATTACCGCCTGCTCATCACTCACCTGGGCCTGCCCCAGTGGCAGTACGCCTTCACCAGCTATGGCATTAGCCCCCAGGCCAAG
Seq A exon
GTAAGGGAGGACTGCCTGTCATCTCAAACTCCAGAAGGTATTAGAATCTTCTGAGGAAATGCCTAAATTGCAGAGTCCCAACTTTCTCATCTGATTCTGCAGATCTGGGTAGAGCCCAGGAACCTGCATTTTCAATAAGCAAAGTAGTTGCTTCCAATTCAGGTGGACAACAGCACTTTATACTAATCTAACTAAGTGGTGTCCAGCCTTGGCTAGTCCTCAGACTCATCTGGGGAGTTCTAATTTCTAATGAATTGGGCGGGGGGCAGGGCTTAGGTTTGACGGCTGGTTTTGGATTCACAGTACACGCACACACAAGAACAGAGAACAGTCAGTCTCTTATTCTCTGGCTCCTCATCCATCCACTTCTCACCAGCAGCTGCTGTTGGTTTCTCTTGTGCCCTCACTGAGCTATGTTGTTGGATAGAAAGCACGCACACATACAGTTTGGGATTCTTTTTCTCTAAGTCACAAGTGAGATACACTGTTCACATTGTTCTACACCTTCTTTTCACTTAATTGCACACTGGAGCTCATTCCCTATCCATATATAGAGAGCTTGTCTCTTTCATTGATATGCGATATTTCAAAATATGGATGGATCATTTATACTATAGATCTAGGTACCATTTTAAACATACAGATGTCAGATAATGCTGACAGACTGCCTTCTTTGAGAACACCAGGTGTGTTGAGAAGAACTTTTGACCTGGTGGCAAAAAATGAGGGACTCAGTTCCCTGTATGTATCCATCAAAGGGACCTCACTTGCTCAAATGGCACATAATGATGACACCATTCAGGTAACACAGTGGGTGGTTATTATCAATGAACATCAATAAGTGTCAGTGCCCTTTGCCTTCAGCTGCTCAGAAAGCCTGCAGGGAAGAGAGCAGGCGGCTCCCCTCAGCAGAGCTGGCTCTAGTCTTGGTCTGCTCTTTCCCCATGGGAAGGATGCTACCCCATCCACCCCAGGGGCAGAGGCTGGTGTGAGGGCAGAACAGTTAGGACACTATATCCTGTACCTTGGGGACCTAGCATCCCAGGCTCAGGCTCACTACATTAGAAGGAAGCACAGTTAGTTACTCAGATTCTTCGTCCTCATCCTGCTCTATTTAAAGGTTATAAGACCCTGTAAAGCAATGTGTGTCTTCCTGTTTACCCAAAGGAAGTGCTGATAGATTTTAGAGGCAGTTTTTCATGAAAACTTTTACTCTCTGCCTCGTCTCCCCAGGTCTCTACCCCTCTATCTCCACTAAAGAACATGAGCAAATTCTTGTCTCCTTTGAATTCTGACCGTCTCTCCCAAATCTGCCTTACAG
Seq C2 exon
CAATGGTTCAACATGTATAAACCCATCACCTACAACACAAACCTCCTCACTGAAGAGACCGACTCCTTTGTGAACAAGCTGGATCCTAGCAAAGTGTTCAAGAGCAAGAACAAGACCATAATCCCCAAAAAGAAAGGGCCTGTTCAGCCTGCAGGCGGCCAGAAAGGGCCCTCAGGTTCTGCTTCCACTTCTAAATCCTCCTCTGGGTCTGGAAACCCTGTCCGGAAATGAGCAACCCCCTCCGCCTCCCCGCCTGCCCCACAGTGGTGATGTCCATGCACAGATGCCCTGGGCATGGCCCAACCTCAGAGTCTGTGTGTGGAACCACAGTCCTCCTTCCTTCTGCACTTGATCTCAGCCAAAAGGCTGAGAAGCGATTCCTCTCCCCATCTGAATGACAGAATCCTAGGCCTTTTACTCCCATCGGCCTGAGCCAGGAGTTGGAAGGGCGTACTCAGGTCTCCCCAAGAATCCTTCCTGCATGCCCATCACAGCAGGTTGTGCCATCTGCTGCTCCTGGGAGCTGTGAGGAATGTAAGGTTTTATGTAAGTGACTAAGTAGATCTGTTAAGAGCTTTCTTCTCTTTCTACCCCAACCCCCAACCCCTCAGCAGTAATTATAGAGGTTCCCCAAAGAAACCACTGGTTTTGACCTAGGAGGCATTAGAACTATGCTGTTCAATTGGTAGCCACTTTTAAAGCAGCTAAATTTAAGCCATATTAAAAATTCAGTTCCTCAGTTTTATTAGCCACATTGGGAATATTTGTGTGGCTAATGGATTCTGTATTAGACACCACAGAGATGATGAAACATTTCTATCATCGCAGAAAGTTCTGTTGGGTAGGTAGCACTACATTAGAATATTTTTGCATTACCCTTACTCAGATCAGTTCATTTTTGTTAGAGAATATTGAACACTCTAACAATTTGATGGGTTGTAATGTTCCATGTAAAATCTTGAAGATACATTTTTATGTTTTTTATATCCTTCCCCACAAGCAAATCTAGCTTTGCTCATTTTTAATTTTCTATAAAGTTTTTCATCTTCATCAGCTTTCTATAAAGTTTGTTTCCCGTTTTTTGATGTGATATTTGCACATTTGCCAAAGTTATCTTTCTCACGTTTTTTTTTAAAGAAGTGATTCTACTGTACCATGAAAACAAGACCTCCCAAGCATTGCTTTTCCAGGACTCTTCATGAAGAGTTTTGATGAAATCAGTCACTTGACAGGAGCTTCCACCTGCTCTGCCTACTCACAACTGCTCGGCAGTTCACGGAGTGGCAGAAGAGGGTAGAGAGGAACCCAGGTGTCAAGGATAATAGCTGAGGTTTAGTCTTCTGCAAGTATTTTTCTTCCAGAACTCATCAGAGGGAGAACCAGCAGTGCTAGAGGAGACAGCCCAGCATTTGGCTGCTTCCCCAAGTCAAGGCTAGAAGGGGATTGAGAAGTTGTGTTGTCTGCCACTGTGGCGAGTATGCTTCCTCTAGTGCTTTTGGAGCCCCTGAAGTATTTCTGCATCAGTTCTGGCCCAATTCTGGATTTCACAAATGAAGCAGCAGAGGAGCCACCAAAGCCACGGTGCCCTTGACACCAGCGACAATCAGCTGGAGTCCCCAGAGGACTTGTAGACAGAGTGGGTTCCACTGTGGAGAGGTTTGAGCCCTGCTTCAGGAGGAGCAGAGCACTTAAGAGCAGGACTGGCTACCTACATAGGGCCCAGTGCAGAATTAGGAGTGGGGCCTCTTCTCCAAAAACCCCGTAGACAGTACCATGAAAAGCACTAAAATGTTTTCCCTTTCTTCTCATGACTTGTTACAGATTTTTTTGTTTGATACTCAATGGTATTCCAGGAAAAATTAAAGTTGTAAATTATTATAATTTTATCATCTTTCTACTTTTGGGCTATTCCAGTTTTAAAGGCCACTATAAGAGCATTTAATTCATATTCATAATCAGCAAAATCACACAATTATATATATAAAATTATATTATATATATATAAAATATAATCATATCTGTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021583:ENSBTAT00000028761:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.447
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=FE(28.6=100)
A:
NA
C2:
PF093465=SMI1_KNR4=PD(4.3=10.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTTCCTGGACAGAGCGTTA
R:
GTTTCCAGACCCAGAGGAGGA
Band lengths:
354-1675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]