BtaINT0152509 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015321 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr23:15982842-15984368:-
Coord C1 exon
chr23:15984215-15984368
Coord A exon
chr23:15983148-15984214
Coord C2 exon
chr23:15982842-15983147
Length
1067 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCCTTTATTGTCTGTGTAGGAG
3' ss Score
6.4
Exon sequences
Seq C1 exon
CAGTGGCCAACCCAAAGGAGTGTTTGGGGAGCAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAGAGCCTGCCCGCCCTGAATGGCCACATGCGGTCCCATGGGGGGATGAGGGCCTCCCCCAGCCTCAAACAG
Seq A exon
GTGAGCAGGAATCCACCCCCTATCCTTTCCAGGCCATGTGCTGCTTGCTTTGCTTTGCTGCCGTCAGATGGAGTAATATGAGCCCCACCCGGGGGACCTGGAGAGGCGTAGTCTTTCCCTAACAGAAGTGCTCAAGCTTTGACGCTGGGAGCCAGCCAGGTCACACAGTCCCCACTTCCACTGGCACCATGAACAAAAATCCAGAACTGAGGTGGTAGAAATCCTTTTAGGGGATCCCAGCCTCTCTGCGTCCTGGAGAAGACAGCAAAGAAAACATGGAGATGCAATATTGTTTTTAACTTCTGTTGCATGAAGCACTCAAGACCAGGGTCCCTTAGGCCTTCCAGATCAGTAGTCAGTGGCCAGGGAGAGCTAGTGTGACCACCAGGCTCCCAGCCATTATTTTCTATTCACTGGGGCACCAGTGTTAGACTCTAGCATTTAGAGTCTAGAGACCTTTAAATGCCCTCGGGATTATCCAGGCAGGATATGCTTGTGGTGAACTATCCACGCAGTTTTAGAGTTAGGTTAAAACTCAAAAGAATTTTCTTGATTCTTTGAATATTTTGCATCTTAATTTAAGTCTATGAGATTAACTTGCTGTTCACCAAAAACTTTGATGTGATCCAGGTCACTCCGTCTCTTGACGATGCCAGTTAAAAGATCTTTGTCTTTGACAGATGAGTCAACTGCAGCCCAAAGAATTAAAAGGTCCTACATGAGAGCTTATGTGGGGTTTTTCCTTCTTTTTTTTTTTTTTTGCCTGATTCTAAGTCCAGATCCTTTTCGTTAAAAGCAATGACAACCACACAAAAATTTTTCTTCACTGTCTGTTTGAATATACAAGTGGTCAGGATTTTTTTAATGTAGAAAATAGAGTGCCTTGTTCACTGCTCATGGGCATCACTGGAGCCGAGAGACTCAGGGTGGCGGGAAGGAAGCCGCCCTGAGGTGGTTCTCTGTCACCCACGCGTGATGTCCAGGAACGTTGCAGGGAGAGCGAAGTTGCATGCCCCACTGTGGGAGCTGCTCTGAGCCCAGGATCAAAGCCTTTATTGTCTGTGTAG
Seq C2 exon
GAGGAAGGAGAGAAGGCCCCGGCGCCTCCGCCTCAGCCCCAGCCGCCACTGCCGCCTCCGCCGCCGCCACCTCAGCTCCCTCCCGAGGCGGAAAGCCTCACGCCTATGGTCATGCCCGTGTCTGTCCCTGTCAAGCTTCTCCCGCCCAAGCCCAGCTCTCAGGGCTTCGCCAACAGCGTCGCTGCCGCCCCCTCGGCCAGAGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCCGTGCTCGTGAGGATGACCCTCTCTCCCCCACACTCGCCCCAAGGGGCTGCCCCCAACCCGCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015321:ENSBTAT00000020376:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.654 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=46.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCTGACATGCTCCATCTGC
R:
CATCTCGTCGTCCGACATCGA
Band lengths:
342-1409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]