BtaINT0134979 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015436 | SLC27A4
Description
Bos taurus solute carrier family 27 (fatty acid transporter), member 4 (SLC27A4), mRNA. [Source:RefSeq mRNA;Acc:NM_001075667]
Coordinates
chr11:98961054-98963350:+
Coord C1 exon
chr11:98961054-98961448
Coord A exon
chr11:98961449-98963191
Coord C2 exon
chr11:98963192-98963350
Length
1743 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGTCTTGTTTCCCCTGCAGCTG
3' ss Score
12.33
Exon sequences
Seq C1 exon
CGGCGGCACCGTGCTCCTGAGGGTGAAGGCCAAGGTCCGACGGTACCTACGGGAGCGACGCACAGTGCCCATCCTGTTCGCCGCCACAGTCCAGCGCCACCCGGACAAGACAGCCCTGATCTTCGAGGGCACAGACACGCACTGGACCTTCCGGCAGCTGGACAACTACTCAAACAGCGTGGCCAACTTCCTGCAGGCGCAGGGCCTGGCCTCGGGCGACGTGGTCGCCCTCTTCATGGAGAACCGCAATGAGTTTGTGGGTCTGTGGCTGGGCATGGCCAAGCTGGGCGTGGAGGCGGCGCTCATCAACACCAACCTCCGGCGGGACGCATTGCTCCACTGCCTGACCTCCTCCCAGGCCCGGGCCCTCGTCTTCGGCAGCGAGATGGCCCCAG
Seq A exon
GTGAGCCCTAAAGTGGCAAGGGACAGGCAGGGAGTCCCACGGGACTGTCACAACCCACCTCCAGCCCCTGGGGGAGGCTGTGTGGCTCAGAGGTTAAGGGCATGAGCCCTAGAGTCAGACGGTGTGGGCTCTTCCCCCACAACGCCCGGGAGCCGGGAAACCCAGGGAGATGGCAGTCCTCTGCCGCAGTCTCCTCACCACAGCACCGTTTTCAGGGAGATGCTTAATAGAGTGAAGCATTAACAAAGCAGCTGATGCTAGGTGAGCCCTCAGACACGATGGTAACCATTCTTGTGACTCACTTGGCTTCATCTCAATCAGTTCAGTCACTCAGTCAGTCTTGTCTGACTCTTTGCGACCCCATGGACTGCAGCATGCCAGGCCTCCCTGTCCATCACCAAGTCCCAGAGCTTACTCAAACTCATGTCCATCGAGTCAGTGATGCCATCCAACCATCTCATCCTCTGTCATCCCCTTCTCCTCCCGCCTTCCATCTTTCTCAGCATCAGGGTCTTTTCCAGTGAGTCAGTTCTTCGCATCAGGTAGCCAAAGTATTGGAGCTTCAGCTTCAGCTTCAGTCCTTCCAATGAATATTCAGTATTGATTTCCTTTAGGATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAATCTTCTCTAACACCACAGTTCAAAAACATCAGTTCTTTGGTGCTCAGCTTTCTTTATAGTCCAGCTCTCACATCCATACATGGTCTCATCTACCTGCCCTGTAAAATGGGAGCAAGAAGCCTCTCCTTGCTGTGCCTCAGAGCTTATGTTTATTGGCCTCCGCACTGGCACTGACCACGTGCTGAGCTCGGTGCTTCACAGAAGCAGCTCTAATCTTCACAAAGCCTGGTGAAAGCAGAGAGTGTCATCTTGGCTTTACAGAGAACGAGACCGAGGTTCAGAGTGGCGCGAAGCACTCACCCAGAGCCACACAGCTGTTAAGTGGGTGACAGAACCGAGATTTGACCTTGGGCTTGACCCCAGTGTGCCTATTCTCTCTCCCCACGCTGTTGTAACTAATGGGCTAATGTTGTGGGCTGATGGGCAGAAGAGGTTACGGAGATGCTGAAACGAGGAGAGGAAGGAGGCAGCAGAGAGAGAGTGAGAGGGTTGGAAGAAGTTAAGAGAAAGTATGGCTGAGTGGGCCAGGATCGGCCTGTGGTCCGGTCGCTGAGTGTCTGGACATCTGTAGTGCACAGGGGAGCCTGAGAGAAGGCCACCACCCTCTGAAGAGGCTGGAGGGCTGCCAGCCTCTGATCGCCCCCCGACTCCTCCCTCCTAACCAGTCCCCCATAGACTAGCATCATACAGTGGATAGAAGCGTAAACCTTGAGGTGAGGTAGAGCTGGCTTTGAGCCCCAGATCTGGCACATTCTAGCTGTGACTCCCTGCTGTGCTTGGGGCCTCAGTGTTCCCATCTGTAAGATGGGCTGTTACTGGTACCTGTTTCCTGAGTTATGTGAGCAGGAGCCTACATGTAAAGAGCCTGCCACATGATCAGCCAGCAGCTTGCGGGAGCCCTTGCTTCTCTCAGCATCCTCCTTATAACAAGTCCCAAGCGCTTCACCCACCTCTCTGCCACACCCAGCCAGCATCCCCTGACACCATGCTCAGCCCCGACACGAGTAGAGGTCCCCGGAACACAGGGCCGGGGGAGGAAGGAGTGCCCTGGCCTGCCTGTAGATCTGTCTTGTTTCCCCTGCAG
Seq C2 exon
CTGTCCTTGAGATCCATGCCAACCTGGACCCCTCGCTCAACTTCTTCTGCTCCGGTCCCTGGGAGCCCAGCACGGTGCCCGCCGGCACGAAGCACCTGGACCCGCTCCTGGAAGATGCCCCCAAGCACCAGCCCAGCCGTCCCAACAAGGGCTTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015436:ENSBTAT00000020526:3
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=0.111
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(24.5=79.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAGCCCTGATCTTCGAGG
R:
GGACCGGAGCAGAAGAAGTTG
Band lengths:
346-2089
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development