BtaINT0154681 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018710 | TTF1
Description
Bos taurus transcription termination factor, RNA polymerase I (TTF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102083]
Coordinates
chr11:102486055-102487578:-
Coord C1 exon
chr11:102487493-102487578
Coord A exon
chr11:102486236-102487492
Coord C2 exon
chr11:102486055-102486235
Length
1257 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
ATTCAATCTCTTTTCTTTAGAGA
3' ss Score
6.75
Exon sequences
Seq C1 exon
GGATGTTCCCCCATCTTACGTCCAGACTAAATTTTATAAACTAAAAGCTACCTGCGTTCCCTTTTGGCAGAAGAAGACTTTCCCAG
Seq A exon
GTCAGTGTTTTCAGTATTTGAATAGTTAAAAACAGCACATGTGGGCACACGTTGGTCGTGTGACCTTGGGCAGGTGACTTCTGGGAACCTCGGATTTTTCAAATGTGAAAACTGACAAATTATAACCCCTGCCTGGGGCTTCTCTGGCAGCTCAGTGGTACAGAACCTGCCTGCCAATGCAGGAGACATTGGTTCAATCCTTGGGTAGCGAAGATCCCCTGGAGAAGGAAAGGGCAACCAATTCCAGTATTCTTGCCTGGAAAATCACACGGACAGAGGAGCCTAGACAGAGGAGCCTAGCAAGCTACAGTCCATGGGGTCGCAGAGAGTCAGACACAACCGAGCAAATGAACACACACGCATGCAACCCCACCTTTTTTTGAATGTACTAGAAGAGCTAACAGACTTGTAAAATGTGGTCACCAGGGTTCCGGGCACTTGGCAAGCACTTGACATGTAACCGTGAGTGATCCTGGGTTGCACACACCGTACGCTCACATACACACGCTCACACCACATGCCTGCACACACACTGTTTCACAGACAACTGGATGCGCCCAGCTCTTTCTCTGAAGCCTTTTGTGAGTGATTTCCACATGTAATTCTCAAACCTGGACCAGGAGAGGAAGCAGTGTGTGTAAAGTACACAAAGCAGAGCCACCTGTAGGGGATGCGCCCCTGCGACAGGGCACACCAGACACGCGAACTGACGCACATAATTGGAGGTGCAAACACATACTCATATCTTGGAAGTTCTCAGCTTGAGGCTTCCTATGTAGGGGACGTACCCTGGGCTTTACCGCAGATACGGTGCATCCTCATGTCTGGGCTGGGTCCACAGGCAAGGTTGTTCTCTAACAAACTCACAGCAGAGTCGCCGGTACCCTGCCCAGCGTCAGCGTTTGGGAGCTGCTGGCTTGAGTGATGCTCTGCTTTGTAGTGTGTGACGAATGCTTCCTGCATTCAGCAGACCCCGCTTCCCGGGCTTGAATCTGACTTTACCCTCCTGACTCCATGACTTTGGGCAAGTTACATAATGTCTTTATGCCTCATGTGAAAAACGGGTGAACAATAGTGCCTACCCGTCATAGGAGTTTTTAGCGGGTTGGACGAGGGACTGTGTGTGAACCAGTAAGAGCTGGGTCTTGGCACACAGTAAAGCCAGGAGCGATACATTGTCATCGTAAGCACCTTCTGTCCTTGACTTTGAAAAGAGGCATTGTCAGACCATCTCAAGATTCAATCTCTTTTCTTTAG
Seq C2 exon
AGATCATAGACTACCTTTATGAGACTAGTCTCCCGCTGCTTAAAGAGAAGTTGGAAAAGAAGATGGAGAAAAAAGGGACTGAGATCCAGGCTCCAGCAGCCCCTAAGCCTGTCTTCCTGTTTCGAGACATCTTTTATTATGATGATGACGACAGTGAGGGAGAAGACAGAGATGAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018710:ENSBTAT00000024905:11
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=0.131
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GGATGTTCCCCCATCTTACGT
R:
TTCATCTCTGTCTTCTCCCTCACT
Band lengths:
262-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development