BtaINT0154685 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018710 | TTF1
Description
Bos taurus transcription termination factor, RNA polymerase I (TTF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102083]
Coordinates
chr11:102498897-102502676:-
Coord C1 exon
chr11:102502598-102502676
Coord A exon
chr11:102499028-102502597
Coord C2 exon
chr11:102498897-102499027
Length
3570 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTGTTTTCTCTTCCTCTTAGGTA
3' ss Score
12.07
Exon sequences
Seq C1 exon
GTAAGGGCATTGCCCGGCCCTGGAAACTCGTATATTATCGAGCAAAGAAGATGTTCGATGTCAACAATTACAAAGGCAG
Seq A exon
GTAAGAAAAAAACGGGAACAGGACATTTCTCTGGTCTTTGTGATAATATAAGTCAAAGGGTCCACAACAAGATGGTGAAGATTCTTGTGTGCGAAACGAGGTGTGTTGCCATGTGTATGTCTCCAAGGACCCTTTCAGGTGTCACCTCTTGAGTTAATCTTCCACAATATCCCTCTTTTAAACCCCTAGTTTTTCTTTCTGCTTTTATCTTAGCACTCGCCATGTGCTGCCTCTTGCCGTTCCTCGTGAGGTTTTCTTGGTGGCCTCCCAAGCTGTAAGCTCCTTGGGAGCCCAGACGCCCCTTCTCAGTGCAGCGTGTCTGCAGCACAGAGCCCAGTACTTTGGGTTTCCGGTGAATGTTGGAAGGTGGAGCTGAGCCACGAGTAAGGTCATCCCAGCGTGATTCAGTTGCATCAGTGCAGAGAGTTTCATGGGGCGATGGACAGTCTTTCCTTTCTTTTTTTCCTAAATAAAATACCCAATTATGGTCTGTTTCTAACACTCCAAATAAAACAAATGTAGATTGAGCCTCGGTTGTAGGTAAGCACTCTGCTTCAGAACAAAGGGATGAGCAGAAAAGCATCAGCTCCCGCCCATGAGGTTCCAGACAGCCACCAAGGGCTCAACCACTGATCCCACCTCCAGGAGGCAGACAGTGTGAACCTATCAGGGCCATCAGGTCCTCCTTAGCACCATGATTTTAAACCAAGACATACGCGTTATCAGATCTTAACACAGATATGACCTTGGTTTCTTTTTTGAAACTTTTGCTGAAAGAAATAAAGCTGAAATAGAGGAAAGGTGTTCATGTGGACTGAAACCTGTCCCCACCCTTCCCCAAGTCCCAGTGTCACACAGCTGTGGACAGAACTTTAAGAAAATTCACCAGCGATGACATGTTCAGTGGGACTTAAAAGAACACTTTTGCTAGATCAGTGTTGACAAATGCGGTAACCTAGGTGTGGGAATGAGGAGAAGGCAGTGGCACCCCACTCCAGTACTCTTGCCTGGGAAATCCCATGGACGGAGGAGCCTGGTGGGCTGCAGTCCATGGGGTTGCTAAGAGTCAGACATGACTGAGCGACTTCACTTTGACTTTTCACTTTCACGCATTGGAGAAGGAAATGGCAGCCCACTCCAGTGTTCTTGCCTGGGAAATCCTATGGATGGAGGAGCCTGGTGGGCTGCAGTCTATGGGGTCGCTAAGAGTCAGACATGACTGAGCGACTTCACTTTGACTTTTCACTTTCACGCATTGGAGAAGGAAATGGCAGCCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCTGTCTATGGGGTCGCACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAGGTGTGGGAATGACGGTTTTAGAATGATGGAAATCTGTCGTTCTGATCATGCAGCTCATTGGTGCCACATTTATGTTGTGCTGGCCATGTACCCTAAGCATGTTTTTACAGGTTAAGGAATTCTTAAGTGGGAAAGCCACAGGAAGTCAAAAGTCAAAGAATTGAAAGGCTCCAAGGGGCTGCAGAGGTCAGAACACTTGTTTCCTCATTTTTGTCCACTCAGTTTCTAGGCACCTCTTTTCTGTGGCTGCAAAGGTGCTCTTAAGTCATTTTTAAAATCTCAGTAAGACCCTGCCTGCCCTGAGAAGGAGACTGCTGGAAAGGTTGATTCTTAGTGGTGAAGGATTGCCATTCAACCATTCTCTGCATTTTAGATACATTTCTGAGAATGCTGGAATCTTAACTGTCCTGAGATAGTTGTGGATCACTATCACTAGAGATGGTTAGTATTTTATAAAGGCTGCTTTCATGTCATATTAGTAATAACATCACCCACCACTTCCCCCACCCCATCCAGAAGGAATTATAGAATGTCATAAAGATGGCTTTTTCTTCACTTAAACATTTTAGGTGTTTGATCTCAAAAATCTCTTTATAGTGCATTTTAGTTCTTTTCTTGAATATCTTTGCTTTTATGTGGGGTTCATAAACCTTAACTTCCTTAAACTGACAGATTTGTGCTAAGCCACCTGTCGTGTCTTTATTGAGTGTCTATTATGTGTCAAGCACCACGGGTACCACAGCGCAGAAAGTCCACAGGGGCCCCGCCCTCCAAGGACGTCCCCTGCAGAGCTGTGCTGCCCGTCTCGGGACCACCACCCTCACACGGCGTGGAGCACTCAAGCCGTAGTTAGTCCAAGCCTTGCCGTTCTGAAGAATAAAATACTGGATTTAGAAGGCCTAGTGTGGAGCAGAAGTGAAGTGAAGGTCACTCAGTCACGTCCGACTCTCTGCGTCCTAGTGCGTGGAATTCTCCAGGCCAGAACACTGGAGTGGGCAGCCTTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATCGAACCCAGATCTCCTGCATTGCAGGCAGATTCTTTACCCCCTGAGCCACAAGGGAAGCCCCCTTATTCATACTTTGAGGTTCTGATTACATGTTGAAATGGCTGCAGGTTTAATACATTCAGTTCAGTTCAGTTCAATCACTCAGTCGTGTCCGACTCTTTGCTACCCCATGGACTGCAGCACGCCAGGCCTCGCTGTCCATCACCAACTCCCGGAGTTTACTCAAATTTTAATACATTAGGTTAAATAAAATGTGTTATTAAATTAACTCATCTAAAAACAAATAAAAGTAATTTTCACACAATCCCTAGAAATTTCTAAGTGACACAATTGACTCAGACATTTCCATTGGCCAGTGGTGGCGTGGGGGAAAGTCAGGCAAACCAGGGAGCCACAGCACACAGTTGGAAGTAGTGACAGGGGCAGTAATGGGATAGTAGGGCACCGCCAGCCCTGACGGTCAGGAAAGCCTTGCTAAGACGCACCGTTTCAACTGCATCTGAAGAGCCGGCAGGAGCTTTCCAGGGGGTCAAGTGGAAGGGAGAGGAGGGCTTCCCATCGCAGGTCTAGAGGCCGAGGTGACTGGTGAAGCTGAACCGTGGAGAGCACTGGCCTTTGCAGGCATAGTCAAAACGTCCAGGTTTTATTGTTCAGAGCCTTTATGGGTCTGGCTGGAGAATAGTGAGATCCATCTGCCCTGGCCTCTGCGTAAGTGAGCCAGGCCTATGGCCAGGGACTGTGGTGACCGATTTATAGGATGCCCACAGGTGAGATGGGCTTCCCTTATGGCTCAGCTGGTAAAGACTCCACCTGCAGTGTGAGAGACCTGGGTTTGATCCCTGGGTTGGGAAGATCCCCTGGAGAAGGGAAAGGCTACCCACTCCAGTATTCTGGCCTGGAGAATTCCATGGACTGTACAGTCCATGGGGTCACAAAGAGTCAGACACAGCTGAGTGACTTTGACTTCACTGTCACGGGTGAGATGCCGAGGCAGGAAGGGGCAGGGCTCTGGATCCTGGGAGCTGGTATCCTGATGGACCACCCCACTCAGCCGCTTCCAGCACCGCAGAGTGCCCAGTGAGGATACAGGCTTTAAGCTTATGGTTCCTGCTCAGCTGTGACCTGTTTTCTCTTCCTCTTAG
Seq C2 exon
GTACAGCAAAGGAGATACCGAGAAGTTGAAGATATACCAGTCCCTGCACGGGAACGACTGGAAGAAGATTGGCGAGATGGTGTCTCGAAGCAGCCTCTCTGTGGCCCTGAAGTTCTCCCAGATCAACGGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018710:ENSBTAT00000024905:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PU(74.1=95.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]
SPECIAL DATASETS
- Pre-implantation embryo development