BtaINT0152503 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015321 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr23:15985254-15988075:-
Coord C1 exon
chr23:15986666-15988075
Coord A exon
chr23:15985301-15986665
Coord C2 exon
chr23:15985254-15985300
Length
1365 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCC
5' ss Score
7.91
3' ss Seq
CCTGCATTGCTCAAAATTAGATG
3' ss Score
4.12
Exon sequences
Seq C1 exon
ATGGGAGACCAGCAGCTATACAAGACCAATCATGTGGCCCACGGTGGTGAGAACCTTTTCTACCAACAGCCACCACTTGGCGTCCACGGCGGGCTGAACCACAGCTATGGGAATACAGTGCCCGGGGCTGGAATGGATGCCCCTCAGGCATCACCCATCTCCCCCCACTTCCCTCAAGACACTCGGGATGGTCTAGGCTTGGCTGTTGGCTCCAAAAACCTTGGCCAAGTGGATACCTCGAGGCAGGGAGGGTGGGGAGGCCACGCAGGGCCTGGAAACCATGTCCAGCTACGTGGAAACCTGACCAATTCGAACATGATGTGGGGGGCGCCGGCCCAGGCGGAGCCCACCGATGGCTACCAGTACACCTACTCGCAGGCCAGCGAGATCCGGACCCAGAAGCTCACCAGCGGTGTCCTGCACAAGCTAGACTCTTTCACCCAGGTGTTTGCCAACCAAAACCTGCGAATTCAGGTCAACAATATGGCCCAGGTGCTGCACACCCAGTCAGCAGTAATGGATGGAGCGCCCGACAGCGCCCTCCGCCAGTTGCTGTCCCAGAAGCCCATGGAGGCCCCAGCAGCGGCTCTCCCGTCGCGCTACCAGCAGGCGTCCCAGCAGCCTCACCCTGGTTTCACTGGTGGGCTGTCCAAACCGGCTCTCCAGGTCGGGCAGCACCCGAGCCAAGGGCACCTGTATTACGACTACCAGCAGCCGCTGGCCCAAATGCCGGTGCAGGGCGGACAGTCGCTGCAGGCCCCCCAGATGCTATCCCAGCACATGCAGCAGCTGCAGCCGCATCAGTATTACCCACCGCAGCAACAGACACACGCCGGGCAACAGCGGGTGTCCATGCAAGAAATGCAGCCGCCACCACAACAGCAGATTCGCCCGCCCCAGCCCCAGCCGCAGCCGCAGCCGCGGCAGGGTTCAATGCAGATACCTCAGTATTACCAGTCCCCACCCATGATACAGCCTTTGCCAGAGCCGCAGCAGCCCCAGATGCACCTACAGCCCTCTTCTTATCATAGGGACCCCCATCAATACACCCCAGAGCAGGCGCATGCAGTCCAGCTGATTCAGCTGGGCTCCATGCCCCAGTACTACTACCAGGAGCCCCAGCAGCCCTACGGCCACCCCGTGTACCAGCAGAGCCACCTGCCTCAGCACCAGCAGCCTGAGGATGGTCAGCCCAAGACTTATCCAGGCGACAGGCAGGCCCAGGCCATGCTGAGCTCCCACGGGGACCTGGGACCTCCAGATACAGGAATGGGAGACGCAGCCAGCTCCGACCTGAACCGGGCCAGCAGTGCCCTCCCGCACCGGCCGCTCCTGTCCCCTGGCAGCATCCACCTCAACAACATGGGGTCTCAGCACCAGCAGCTGTCTCCCAGTGCCGTGTGGCCCCAG
Seq A exon
GTATCCTCAGAGTGGACATTAATCCAGGGATCTCAGGGTGCGCGCGTGCCAACCAGAGCTGAGTCCAGTGCAGTGCCTAGTCCTGTCCTCCAAACCCCTCTGATACTTCCGTTCTTTTCTTTATTCCACAAACGTTAATCAGACACTGTGGAATACGAAATCAACTGTGACTCAGTCTTTTGCCCATAGATCTTATAATCTCACTAAAGAGGTGGCCAAAATATATATCAGGTCCCAAATGATGCATGTCATGGTCAAGGCCTCATCAGGTGCCCAGGGACCACACAGTGGGAGTGGTCTTGTCCCCTTAGATCTGAATCCTTAGGGGACTTCCTATGAAATTGTTCCCTTCTGGGGAGGGAGACCATATTGTGACAGCATTTCTCAAAGTCTATTGCTTAGAATAGGAGTTCCATAGAATGTTTAGTGGACATTGCTCGGGGGAGGGGAGTGGGTTCTTGGGAGAAATCAATATGAGGGGATACCTCATGTAGTTGCAGAGGCGAAAAACCTTAGCTGCCCACAGGATCCAGGCAGGTAAAGTCAATAAGCAGAATGGCCTGGTATGGATTGTGTGGACTGGAGGGCCAATGCGCCAACTAATGATATCCATAGTCAGGGTTTTTAAAAACAGTCCAGCCAAGCAGACTATGTCTGCAGATCAGAGTCAGCCTGCAGGTGACAGGTATTAACTCTTAATTGTTTCCCAAATATATTTGATCATAAAATTGCCTACTGTGTGCTGGGCACCGTTCGTGTTTTGGCGTGTTCCAAGTGCTACACTCAAGTGACAACAGATTCAAGGGAGGAGGGTACCTTGAATAAGACCAGGGTAGATGAAGAGAGGGCTCCGATGAAGGCTGAAGGCCAGAGATGAACTCCCTTTGACCCTGTTTTGTTTAGGACTCAGGCCAGTAGTAACTGAGAGCCTTTGTGAATACAAGAATAAGATGACATGGCCCAGGCTAAAAAGAATTCCAGCAGGAGGTCTCCTTGTGTGAGGCTGTATCATCAGCTCTCCATTCTGTGTCTCTGTTGGGAATGGAGTCTGTCCATGCACAGAGGGGTGGACGGGAAGGACAGGAAAGGAGGTGAGGGACTGAGTCCCAGTGGGCTTGTGGCTGGCGGGGCATCCTCAGGGGTGTGGCCCCAAGCCCGGGAGCATCGAGGGAAAGAAGACTGGAAGTTTCAGGTGCGGAAGGGCAAGGGTATGAGTAGCTATGAGCCCGGTCACCATGAGGCAGAGAGAGGGAAGAATCCTAGAAGGGCAGGCCCTGGTGTTCCCACTGCTCAAGGACCCCTCCTGTCAGAAACATGTGTTTTTTTTTCTTCTTTCTTCTGGTGTCCTGCATTGCTCAAAATTAG
Seq C2 exon
ATGCACCTACCTGATGGCCGAGCCCAGCCAGGGTCTCCTGAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015321:ENSBTAT00000020376:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
CTGATTCAGCTGGGCTCCATG
R:
CGGCCATCAGGTAGGTGCAT
Band lengths:
356-1721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]