BtaINT0143577 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011554 | SURF6
Description
Bos taurus surfeit 6 (SURF6), mRNA. [Source:RefSeq mRNA;Acc:NM_001075529]
Coordinates
chr11:104298967-104302894:-
Coord C1 exon
chr11:104302682-104302894
Coord A exon
chr11:104299162-104302681
Coord C2 exon
chr11:104298967-104299161
Length
3520 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAG
5' ss Score
6.23
3' ss Seq
TTCATCGTTTCTTGTTTCAGCTG
3' ss Score
10.23
Exon sequences
Seq C1 exon
GTCTTGGCTCGTGCTGAGGGCCCTGTGGGCCTGGTGGCGGCCCGGAACGCTGCACCCCGGTCCTCCTCGCTCCGAGCAGGACGGTGAGCGAGCCCCGGCCGACCCCCGAGCCTCCGGCTATGACATCCCTGCTGGCGAAGGACGCTTACCTGCAGGGCCTGGCCAAGAAGATCTGCTCCCAGCCCAGCGCCGAGCCGCAGAAGCGCAAATCGG
Seq A exon
GTAAAGGCGCAGCCCGGGCGGCCAGGGCGGTGAGGGCTTCGGACAGGGTACCCCGTCCGCCCTCGCGGCGCTCGCGTCCCCACTCCCCTGCACCGCCCCTGAGCCGTCTTCAGGCGGAGCAGACCCTCAGACGCGTGAAGCGGGCCTGCGAAGTTCCAGAGGGAGACACCGTGAGAGACGCTCAGGGCCGCGCCGCCGCCCCGGCCCGTTGGGGGCTGTCTCGGGGTCCGAGGGGGCTCAGCCGTGCGCCCCACCAGGCGGGAAGCTCGGCCGGGGTTTGGAGGACGTGACTCTGCGGAACAGGCTCGGCCAGCTCTCCACATTGAGTGGCAAGGCTGGTGTGAGCGTTGATGAGAAAGATGATTTATTCAGCCCATTACTGTGGGCAGTGTGGGGAGAAGGGAGGAAGAAGGTGGCCCTGCCAATGGTAGTGTACGTGGCAGGGGTGACAGGGCCCCCTCATACACACAAATAGGCGAAGCAGACAAAAGCTGCCCTGTGGGGAGCCGGGGCTCGTAAGTCCTGTCCAGCCTGGGAGGAGAGGGAGAGCGGCAGGGACGGGCGTGGACCTACCAGAGGAGAAACGGACTTTCGTTACACCCGGAAACCTGTTCACTCTAGGGGTTAAGTGAGTTCCCATCACTCAGTGAAAAGTTAGATCTGTGTCTTTCTAGTTCCTTTCCTGTGTATTTCTCCCTGAACCAATCGGGTCCCTACTTGGTGCACTCATTTCTCATTTTCCTTTTAAAATATAAACATTTTCTCCACCTTTTCTTTGCCACATCACTTATGGGATCTTAGTTCCCCAACCACACATTGAACTCAGCCCTTGGCAGTGAGAGTGTGGGGTCCTAACCACTGATTCAGTTCAGCTGCTCAGTCGTGTCTGAGTCTTTTCCACCCCATGGACTGCAGCACCCCAGGCTTCCCTGTCCATCACCAATTCCCAGAGTTTGCTCAAACTCATGTCCATCGAGTCCATGATGCCATCCACCCATCCCACCATGTGTCAGTCCTCCCACCGCATCCTGATGCCTTCTACTCCTGCCTTCACTCTTTCCCAGAATCAGGATCTCCAATGAATATTAGGTGTTGATTTCCTTTAGGATTGACTGGTTTGATCTTGCAGTCCAAGGGACACCAACTCCCAGAGCTTGCTCAAACTTCTGTCCATCGAATTGGTGATACCATTCAACCATCTCATCCTCTGTCATCCCCTTCTCCTGCCTTCAATCTTTCCCAGCATCAGGGTCTTTTTCAGTGAGTCAGTTCTTCACATCAGGTGGCCAAAGTATTGGCGCTTCAGCATCAGTCCTTCCAATGAATAGTCAGGACTGATTTCCTTTAGGATGGATTGGTTTGATCTCTTTGCAGTCCAAGGGACTCTCAGGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGTGCTCAGCTTTCTTTATGGTCCAACTCTCACATCCACACGTGACCACTGGAAAAACCACAGCTTTGACTAGCGGACCTTTGCTGGCAAAGTGATGTCTCTGCTTTTTAGTATGTTGTCTAGGTTAGTCATAGCTTTTCTTCCAAGAAGTAAGTGTCTTTTAATTTCATGGCTGCAGTCATTTTGGAGCCCAAGAAAATAAAATCTGTCACTGTTTGTACTGTTTCCCCATCTGTTTGCTATGAAGTGATGAGACTGGAGCCATGGTCTTCATTTTTTTTTTTTTTTTCCATTTTTTGAATGTTGAGTTTTAAGCCAGCTTTTTCACTCTCCTCTTTCACTTTCATCAAGAAGCTCTTTAGTTCCTCTTTGCTTTCTGCCATAAGGATGGTATCATCTGCATATCTCAGGTTATTGATATTTCTGCTGGCAATCTTGATTCCAGCTTGTGCTTCATCCAGTCTGGCATTTTGCATGATGTACTCTGCATATAAGTTAAATAAGCGGAGTGACGATATACTGCCTTGACGTATCCCAATTTTGAACCAGTTCATTTTTCCATGTCTGGTTCTAACTGTTGCTTCTTGATCTGCATACAGATTTCTCAGGAGGCAGGTAAGGTGGTCTGGTATTCCCATCTCTTTAAAAATTTTCCACAGTTTGTTGTGATCCACACAGTCAAAGACTTTAGTGTAGTCAATGAAGCAGATGTAGGTGTTTTCCTGGAAATCCCCTTGCTTTTTCGATGATCCAGTGGATGTTGGCAATTTGATCTCTGGTTCCTCTGTCTTTTCTAAATCCAGCTTGAACATCTGAAACTTGTCAGTTTATGTACTGTTGAAGCCTAGCTTGGAGAATTTTGAGCATTACTTTGCTAGCAGGTGAGATGAGTGCAATTGTGCGGTAGTTTGAACATTCTTTGGCACTGCCTTTCTTTGAGATTGGAATGAAAACTGACCTTTTCCAGTCCTGTGGCCACTGCTGTTTTCCAAATTTGCTGACATATTGAATGCAGCACTTTTACAGCATCATCTTTTAGGATTTGAAGTAGCTCAGCTGGAATTCCATCACCTCCGCTAGCTTTGTTTGTAGTGATGCTTTCTAAGGCCCACTTGACTTCACACTCCAGGATGTCTGGCTCTAGGTGAGTGATCACACCATCGTGGTTATCTGGATCATGAAGATCTTTTTTTGTATAGTTCTGTGTATCCTTGCCACCTTTTCTTAATATGTTCTGCTTCTGTTAGGTCCATGCTGTTTCTGTCCTTTATTGTACCCATCTTGCATGAAATGTTTCCATGGTGTCTCTTAATTTTCTTGAAGAGATCTCTAGTCTTTCCCATTCTGTTGTTTTCCTCTATTTCTTTGCATTGATCACTTAGGAAGGCTTTCTCTGCTGTTCTTTGGAACTCTGCGTTCAAGTGGGTATATCTTTTTCTCCTTTGCCTTTTGCTTCTCTTCTTTTCTCAGCTATTTGTAAGGCCTCCCCAGACAGCCATTTTGCCTGGACTGTCAGGGAATTCCCTTTCCACCTTTTAATTTGAAAGCGTGTGTGTGTGTGTTCAGTCAGCTCAGTGTGTCCAGCAGTTTGCGGACCCCGTGTACTGTAGCCTGCCAGGCTTCCCTGTCCATGGGGTTTTTCCAGGCAAGAGTTCTGGAGCAGGTTGCCATTTCCTCCTCCAGGGCACCTTGCTGACACAAGGATCGAACCCGCATCTCTTTGCCAAGTGGATTCTTTCCCACTAGCGCCACCTGGGAAGCCCAAAACGATATAACCCATTCTGGGGTACACAGTTTGTTGTGGGACGTGCCTTCATTGTCCCTGAGGATGGATACAAGGAGACTGCTGGGTCAGTGTGTGGATGTTGACGGTGGGTCAGCATATTACACTCATCAGGGATTGATGAGTGTGACCAGTCTGCTTTCCAGAAGGTGTGTGGTTCTGAGCTCAGTGGATGAGGGTCCCCACAACTCCCATCTCAACTGGCTTTTGGCATCCTTCTGAAATCAAAACCTTTGCAGGACCTTCTTACCTACTGACTGGGTCACGGGGATTGAAGTTGCAGCCCTTCATCGTTTCTTGTTTCAG
Seq C2 exon
CTGGAAAAACTCAAGTCTCAGAAGCTGCTGCGCCCCCCAGGAAGAAGAGGAAGAAAGCGCAGAAGAAATCCCGGGAGCGGGAGAGGAAGACTGCAAAGCCCAAGGCCCAGGCCTCTGCGGAGAAGTCTGAGGCCAGGAAGCCAGAGGTGGCCAAGGAGGAGGAGGGAGCCACCAGCTCCACCAGGGTCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011554:ENSBTAT00000015353:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.625 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:
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