BtaINT0126495 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018690 | RPAP3
Description
Bos taurus RNA polymerase II associated protein 3 (RPAP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001101930]
Coordinates
chr5:32758121-32762609:+
Coord C1 exon
chr5:32758121-32758165
Coord A exon
chr5:32758166-32762425
Coord C2 exon
chr5:32762426-32762609
Length
4260 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTTTGTTTAATTCTTATCAGGGA
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCCGGCTGGACGCAGTGGAAGTGGGGTTGGTAACGGCCTGGTGAG
Seq A exon
GTGAGCCGGCTCTGCGGTTATCCCGGGCTGCAGTAGCGAGGAGGCTTTTGGGGTCGCCCGGCGGGAGGAGGGGGTGCTGCCATGGTCCCGCGTGAGGCGGAGAGGGCGAGGGCGAGGGCGTGCGCGGGGGCGCGGCGCGGCGGTGTCTAGGTAGCGGCGCACCGGGGAGCGCGTTTCGGGAGGGGCTGGCCCGGAGCTATCTGGGCCTGGACGGTCAGCTTTACTGTCGGTCCCTCGATTCCTGCTGCTCTGGGCGTTCGGCGATTTGCGGTGGTCCAGGATCGCGGATCCATTCTCCCGAGAAGACCTGTGTGGGGCCCGCCCCACTTAGTCGTGGGTGTGCAGTGCTCGGCCGCATATTGAGTATGAACGTGATACCCTCAGGCGCTGGAAGTTTCTGGTTGCCAGCCTGGACGCAGGTTCCGTGGGAGCGGAAAGATGATGGGTAAAATGAAACAGGTTTCTACCTCCCTTGTATCTCAGTGGCTTGCTGCGGTTTTATTTATGTTTTTGAGCACCTCGCCAAAGCATTGTACTAGTTTTGTTTTTTAATGAGATATATGTGACCAAACGTGTGCACTGCCTGAAAAAAGCTTAAATTTAGTTTCTGAGGCAAGGCTAAGGGGTCAGAAGACCTATCTGCGGTTGCAAACATGTTTTAGGAGAATCCCTTTTCTAATCTTTATCTCTCTTCCAGCCTAACTTTCCCTCACCTCCCCATATTTGGGGACCTTGCCCATCATTCATCTACTTTCCTGTATCTTCTTTAACTTTGTTTTTCAGTTCCTCTGCCCTCCATACTCGTGAAGAATTTTAGGTTATCAAAGATGAAGTACTAATCCCCATATAATCTCATTTATTCAGTTCATTTTACTTTTATACTTAAAAAATGGCCTATTTGAACTCTAAACAATATTTAAATGACTAAATACAATGTACTTTATTTCCCACATATGACCTCTATGGCCTTCTTGAACTCATGGGAATTCTCTTCTGTGACAGTAACTCCAGGTTTTCCTTCCAGCTCTCTAGATGCCACTGCCTGATTTTTAGTGTTGGCATTTCTTCCTCTATTTGTTCCCTAGATATTAATGTTCTGCAGATCTCTTCTCTTCCTTCCCCCTCCACTGTCACAGTAATTTAACGTGTCCAAATCTCATGATTGTAGCTTCTACCATTATGCTAGTGACACCCGAATTTACATTTCTAGGCCTCTATAACTACTTACTGTGTCCTGACATCTCATAGGAACTCAAAATCAATTTATGCCAAACTGAAAAAATCTATTTTTACACTTGTTCTGCCATCCTGAAACCTCTTTTCCTTTTGAAATTATGATTCCTGACTCAAAATGGTACTACTAATCTTACCAGGCTCCCAAACCAGAAATCTAAGACTTTGCATCCTTCTCTGCTCCCCAGCTGGAGAAGGAAATGGCAACCCATTCCAGTATTCTTGCCTGGAGAATCCCAGGGACAGAGGAGCCTAATGGGCTGCCGTCTGTGGGGTCACACAGGGTCGGACATGACTGAAGCAACTTAGCAGCAGCTGCTCCCCAACTTCTCAGTCTAATGAATTATCATGTCCCTTTTAGTTTACCACCGTAATGTTTCCCGTGGCTTTCAGATCATTGGTCACCTCTCATGGCCTGGCATTTCACGATCTGTCCCATCCTCCTTCTTAGCCTTCTCTTCCATCCTTCTCCCGCCTAGTCCCTCATTCTGCCTGCCCACTCCTCCACATTAATCACTTGACTGGCCCCTTTTGAAACATGGGTAAATTGCAGCAGCTCTGGTGACTCTTTCCTTAAACCTACCACCCTACCATCTGATTCATACCTGTCCTCTGTGGTCAGTTCTGTAGCATCTGTACATACCTCTGACAGTGGTTCTCAACCAGGGGTTTTTATGCTTCCCAGGGGACATTTGACAATGTCTGAAGACATTTTTGATTGTCATAGTCCAGAGGGAAAGGAGTAATTCTGGCATCTAGCTAGTAGAGGCTGGGGATGCTGCCAACCATCCTACAATTGCACAGGACAGCTGACCTACAACAAAGAATTATCTGGCCCAAAACATCAGTGATCCCAAGGTTGAGAAGTCCTGCCAAGTATAATATTTTGTTACTCAGTACTTTGATTATTTTCTTCTCCACTAGAGAAGGGACCTTGTCTTGTTTTTGCATCCCTAAATCTTTTTTTTTTATTTTTATTTCCTTTCATCCCTTGAGAATTTGCATTCCCAAGAGACTCCCATTGCTGTTTTTTTTTTTTTTAATATTTTTATTTTTTGTTTTTTAACTTTACAATATTGTATTGGTTTTGCCATATATCAAAATGAATCCACCACATGTATACATGCGTTCCCCATCCTGAACCCTCCACCTTCCTCCCTCACCGTACCATCCCTCTGGGTCGTCCCAGTGCACCGGCCCCAAGCATCTAGTATTGTGCATCGAATCTGGACTGGCGACTCGTTTCATATATGATATTATACATGTTTCAATGCCATTCTCCCAAATCATCCCACCCTCTCCCTCTCCCACAGAGTCCAAAAGACTGTTCTATACATCAGTGTCTCTTTTGCTGTCTCGTATACAGGGTTATTGTTACCATCTTTCTAAATTCCATATATATGCGTTAGTATACTGTATTGGTGTTTTTTTTTCTGGCTTACTTCACTCTGTATAATAGGCTCCAGTTTCATCCACCTCATTAGAACTGATTCAAATGTATTCTTTTTAATGGCTGAGTGATACTCCATTGTGTATATGTACCACAGGTTTCTTATCCATTCATCTGCTGATGGACATCTGGGTTGCTTCCATGTCCTGGCTATTATAAACAGTGCTGCGATGAACATTGGGGTACACGTGTCTCTTTCCCTTCTGGTTTCCTCAGTGTGTGTGCCCAGCAGTGGGATTGCTGGATCATAAGGCAGTTCTATTTCCAGTTTTTTAAGGAATCTCCACACTGTTCTCCATAGTGGCTGTACTAGTTTGCATTCCCACCAACAGTGTAAGAGGGTTCCCTTTTCTCCACACCCTCTCCAGCATTTATTGCTTGTAGACTTTTGGATTGCAGCCATTCTGACTGGTGTGAAATGGTACCTCATAGTGGTTTTGATTTGCATTTCTCTGATAATGAGTGATGTTGAGCATCTTTTCATATGTTTGTTAGCCATCTGTATGTCTTCTTTGGAGAATTGTCTGTTTAGTTCTTTGGCCCATTTTTTGATTGGGTCATATATTTTTCTGGAATTGAGCTGTAGGAGTTGCTTGTATATTTTTCTTGAGAAAGAAAAATGGAACTGAGGAATCCACCTGCTTGACTTCAGGCTCTACTACAAAGCCACAGTCATCAAGACAGTATGGTACTGGCACAAAGACAGAAATATAGATTAATGGAACAAAATAGAAAGCCCAGAGATAAGTCCATGCACATATGGACACCTTATCTTTGACAAAGGAGGCAAGAATATACAATGGATTTAAGGCAATCTCTTTAACAAGTGGTGCTGGGAAAACTGGTCAACCACTTGTAAAAGAATGAAACTAGAACACTTTCTAACACCATACACAAAAATAAACTCAAATTGGATTAAAGGTCTAAACGTAAGACCAGAAACTATAAAACTCCTAGAGGAGAACATAGGCAAAACACTCTTCGACATACATCACAGCAGGATCCTCTATGATCCACCTCCCAGAATACTGGAAATAAAAGCAAAAATAAACAAATGGGACCTAATAAAACTTAAAAGCTTCTGCACAACAAAAGAAACTATAAGCAAGGTGAAAAGACAGCCTTCAGAATGGGAGAAAATAATAGCAAATGAAGCAACTGACAAACAACTAATCTCAAAAATATACATCCCTAAATCTTAATACAGGGCTTATTACATAGCCAAAGTTCAGTAAATGTTGAAAGGAAAAGGAGTAAAGGAGGTAATTGGCTAAATGTATAAACTGTAGAGATATGCAGCCAATCTGCTACCATAGGCTATTTGCTAATTTCAGTAATTTCCTCCATATTGCCTTTCATTCATATTGCATGGATGCCCAAAGTTTTCTGTTTTACATTTGATTATTCAGCAAACATTGATTGACTCATTTAAAACATAATATACTGATATTTTCTTCTGCATCATTTTAAGTTCCTTTCTTTACATGTATCTTGGCCATTTATAAAGAGGTAAAAATCATTAATTAGCTAGGTTTCAAAAAAAACTAAACCAAATAATTTTGTTTAATTCTTATCAG
Seq C2 exon
GGATTGGTTGGTCAAAACTCTGCACGCCGTAATGGCTTCAACAAGTAAAGCAATTGAATTACAACTGCAAGTGAAACAAAATGCAGAAGAGTTACAAGACTTTATGAGGGATTTAGAAAACTGGGAGAAAGATATTAAACAAAAGGATATGGAACTTAGAAGACAGAATGGTGTTCCTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018690:ENSBTAT00000024878:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.647
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]