BtaINT0124269 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030593 | RFTN1
Description
raftlin, lipid raft linker 1 [Source:HGNC Symbol;Acc:HGNC:30278]
Coordinates
chr1:155183616-155184715:-
Coord C1 exon
chr1:155184642-155184715
Coord A exon
chr1:155183698-155184641
Coord C2 exon
chr1:155183616-155183697
Length
944 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CACTCCCGTGTGTGTTGCAGGGA
3' ss Score
9.54
Exon sequences
Seq C1 exon
NTGCTGAACTCGCTGGCTGCCTACGGCTGGCAGCTCACCTGTGTGCTGCCGACTCCCGTCATCAGGACAACCAG
Seq A exon
GTACCAATAACCAGCTTACCTTACCGAAGCTTGCACCGTCCTGACCAGCTCTTCGTGTGCGTGACTTGTGGAATCCTGTTGGCATCAGCTCTCCACCTGAGGAACGGCAGGCCCAGGACCTCAGAAAACCACCCCTGCCCCGAGCACCCCCTCCCCACGCGGGCAGCTCAGCCAGTGACTTGCTGCCCAGCCTGTCACCGGCTGGAGGGGGCCCAGGTCTCTCATTTGCGAAAGAAACTCAGCACCTAGAGTGTGCCCCAGGCCGAGCGGCCACGTTGTGTACAGTCTCATCTAGTCCTCAGAGCATCCCGGGAGGCAGAATTTTTTTTGTTGTTTTGGGGATTTATCCCAGTCTTACCAACCCTGAAAGGCCTCTGTCTGTCTTCTGGACTTGCTGTCAAACTAGTCCTCCTAATTACCTGTGGGGTGGTAAGCATAGATATCGTGCCCATTTTATAGATGAAGAAACTGAGGCTCAGGGAGGCTTCGTCACAAACCCGGACACACAGCCAGCAGGAGCCTCAGCCTGGGCCCAGGTCCTCACTGGCCACCCATCCCAGGCCAACCAGCTCCCACCCCAAGCCTCATCCCCAAAGACAGACTTGGAAGAGCCCCACCCCCGCCCGGTGTTCACCGAGGCCACTTTGTTGTCATTTGGCCAAGATGCCAGCTGTCATTCCACACCAGGGCAAGGGGGGTTTTCAGACATGAAGCTGCCTTTCAGGGGTGCCCACTTCTGTTGGGCCCGTGAGACAGCCCCCCAGAAGCAAAGGTGCGTGCTGTGGGGGGCTTCATGACCTCTGACCTCTCCATCTTGGGCAGCCCCCTTCCTTCCCTGGCTGGCTGGCCTGGCTGAAGTTGGAGGTGGCGGCCTCCATGTGAGGTCCGGGCCCCCCGCCCCCGGGTGTAAGAGGACTCATCCTCCACTCCCGTGTGTGTTGCAG
Seq C2 exon
GGAAGGGACTGTGTCCACCAAGCAGGTCGTCTTTCTCCAGAGGCCGTGTCTACCTCAGAAGGTCAAGAAGAAGGAATCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030593:ENSBTAT00000043219:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF152501=Raftlin=PU(26.1=96.0)
A:
NA
C2:
PF152501=Raftlin=FE(29.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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