BtaINT0152512 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015321 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr23:15976588-15978038:-
Coord C1 exon
chr23:15977972-15978038
Coord A exon
chr23:15976728-15977971
Coord C2 exon
chr23:15976588-15976727
Length
1244 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
TTTCTTCTTGTGATTTAAAGACG
3' ss Score
5.14
Exon sequences
Seq C1 exon
ACAGCATCGATGGCAGCAACCTGACGGTCACCCCGGGGCCTGGAGAGCAGACCGTTGATGTCGAACC
Seq A exon
GTAAGGAAGAGCCAATTATTCTTTAGAACAGAAGCCTCAACCTAGAAAAGGGAGGAGGAGCTTTAAGAAGTATAGCTAGTACTTCTGGGGGCCGAGTGGCCACTGGGCAAGAAGTTGTAGAAAGTGTAGGATCGTGGTATTTCTCAAGTATGATGGTTACCCTATGATTTCCAGTATTTCAAGGCCTTTTCTACAGACTAAAGGCATTAAGAATGTGGAGCCTCGTATTTGGAGAACCTTAGTGTCCCCATCTCCAGCTCCATGAGCCAGTTTGGTTGGGGGCCACAGGCCTTCACGTCCCCAGTGACATCTTTCTCAGGGTACCTAGCTCCCTAGGAGGCTCCACCCACCACCCTGCTCCTTTACCCCCTCCCTAAGATTCTTGGCTGGGCCGCCAAATGGGCTTGTTGAATACTTGAGTTGGGGGATATATTTGAAGAGAAAAAAAATTTTTTTTTTCCTGTTCCTGGGTAAACGCAAAAGAGGCCAGATGGTAGAGTGGTAAGGAGATTGAGTCAGGAATCAAGAAACCTGGTTCCAGCACCATTTTGTTATTTGATCTTGATAAAGTTAACCTTTGTAGAGTTTAGTTAACTCATCTATTAAGTAGGAATACTTCTCATTGCTTTGCTTACCTCACAGGCCTTTGTGAGGTTCTGATGGGATCATTTATGTGAAAGTGGCCTGAAAGGACAAAACTAAAATAAGGACTTTGTATTTGTTTCACTGGGTCAAGTGGTACCTTTGGCCATGTTCTGGGCAGCTGTCCCTTGGCATTAGCACCCTCCCTGTCCCAGCTGTGAAAGTCGCTCAGTGGTGTCCAGCTCTTTGCGACCCCGTAGACTGTATAGTCCATGGAATTCTCCAGGCCAGAATACTGGAGAGCGTAGCCTTTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATCGAACCCAGGTCTCCTGCATTGCAGGTGGATTCTTTACTTGCTGAGCCACAGGGGAAGCCCCTCCCCAGCTCTAGGGAGCTAAGAATCCCCAGCCAGCCTTCTCCCTTGCTTCCCGTGGCATCTCTCCCCAATCTTCAAGCTGTTCTTTATCCCAGTGAAAAAGTCATGCCTGGAATCTTCAGATCACAGTGCAAGGAAATGCCCCTGCATTCTTCTTGCAGAAGGAGCTGGTTTCCTTCATTTTCAAGTCCCTGACATTTACCTTTGGTCTCAAATTGAAGACCACACTGTTGTTTTTCTTCTTGTGATTTAAAG
Seq C2 exon
ACGCATCAACATTGGCTTGCGATTCCAAGCGGAGATCCCAGAACTCCAGGATGTCTCTGCCCTGGCCCAGGACACACACAGGGCCACACTAGTATGGAAGCCCTGGCCAGAGCTGGAAAACCACGACCTCCAGCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015321:ENSBTAT00000020376:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.739 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0144819=ELM2=PU(78.9=93.8)
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:
ACAGCATCGATGGCAGCAAC
R:
TCTTTGCTGGAGGTCGTGGTT
Band lengths:
206-1450
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]