RnoINT0137266 @ rn6
Intron Retention
Gene
ENSRNOG00000018170 | Slc27a1
Description
solute carrier family 27 member 1 [Source:RGD Symbol;Acc:620927]
Coordinates
chr16:19999112-20001113:+
Coord C1 exon
chr16:19999112-19999287
Coord A exon
chr16:19999288-20000945
Coord C2 exon
chr16:20000946-20001113
Length
1658 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
CTCTGCCGTGTTTTCCGCAGGAT
3' ss Score
12.61
Exon sequences
Seq C1 exon
GGGACGGACAGGGCAGAGGCACGCAGGGGCGCAGTGAGAAGCGCCTAGGACTTTGCAAAGGGCTCATCCCCTGAAGGGACCCACCAGCTAGGCCCGAGCTCAGAAGTTCCCACTCCAGACTTCTGCGAGAACCCGTGAGGAAGCAGCGAGAACCGGGGGTTTGCAAGCCAGAGAAG
Seq A exon
GTCAGCATGACAGCAAGGGTGGGGGCACCCCAGCAGGAGGGATTGGGGCGCCTCTGGATAGGTACTTAGGAATCTAGAGTGCAAACAGGGCTTGAGGGGCCCTTGCCCCTGGGGAGCAATAAGGGATGCTGGGGTACAGTAGGGTCTCTTGTGGGAGCTCACGTGGAGGAAGGATGAGGAGCTGATGTGCGCCCTGGGATGTGACTTGTTAAGATTTGGGAGGTAGAATTGGGGTTTCAGGCTCCTTATCTTCAAGACTGAGGCCTCTGCGGGCCCTCACCCCCACCGCCACCCCGGGTCTGAATTACGACTCTCTGAGTCTGGAATGCTGAGAAGCTTTGGAGCTTGGATCTAGGACAAGCTGGATCAGGCAAGCTCCAGCACAAGCGGGCCCTGGGCAGGATTTGGGCACCTCGGGGGCTGGGATGGGGAATTTGGAGACTTTCTGGGATTAGGCAGGACAGAACCACACCCCCTAGAGCTAAAACCCCGCCCTCAGTACCGGCTTGATTTCGCCGCTTGGTTGCCGTGGAGACTCGTAGGTACCCTGGGCTGGCCTCTCTAGCTTGAGAGTCTCGTTGGGTTGCAGGCTCTCTGGCCCGCGGTTCCTCTCTATGGTCTAAACCTCCGGAAGGGGGTCGACTGGTGCGGAGCAGGGTTGCGGGGCGATAGGGTTTGGCGGTAGATTGGAAGGTTTGGGGCGGAGCTAGGCGCTGGGTGAGCCGCACTGACCCGGCCTTTCCGTGAGCAGTGACTGACAAGACCTGGAGGCGGCGCGGGAGGCTCAGGTAGAATCTCGGTCCAGGGTGCCAGATAGTCTAGGGACTGTGGGCGGGCCCGTGTCTGTGGGCGGAGCCATGGGCATCACCTGGAGAGTGATCTGAGTCAGTGTGGGGAGGCCGATGGGGGCGGAATCTTGGGACTGCTGAGGGCGGGGCCATAGGTCTCACCCGTAGGGAGGGACTTGGGGCAAGAGTGATCAAGTGTGAGCTAGGGGGTGGAGTCACGGGCCTTCATCTGGGGGAGGAGCCTCGACCAGGTTGCGAGACTTTGATTTGAGGCTCTCAGTGAGGGCGGAGAAAGAGGCCTCGGTTGGGGGCGGGGCCTAATGATGAGGGGGTAGATAGGGGATAGATAGAACACCCATCCTCTGATGCTAGATAAGCATGAGGATAGCGTGTGAATTTTGAGACTCAGAGGAGGGATAAGGTGACATTAGGGCATGGCCTGGACCATTTGCAGCGTAGGGCCTAGGTGTGTGCTGGTTACTAAGCGACCCCAGGCTTGGAGGGCTGAAGCTCAGGGGTGGAGCTTGGCCGTGGGAGTGTCTAACCACGTGGTCAATGCTTGGAGAGAAGAATCTGGCTTTGATGGGCGGAGGGCAAAGATTGAAGAAGTAGCCAATCCCAGACCTTGAGGCGGGCAACGCTAAGTAAACTGGTTGAAATTGGCTTCCCTAGATAGAGCCTTGCTCTGCGGCGGCGGGGCGGGGCCTGATGCCAAGGTACACGCTGGGGGCGGGGCCAGGTTTGTAAACGCTTTTGGGTTTAGGCTACAGAATAAGGAAAAGGAACTGGGTCAGGGTCTGTGACGTAGCCTGGGCGGGGTCAGGACTAGGTGGGGGGCGGGACCCACAGTCTCTGCCGTGTTTTCCGCAG
Seq C2 exon
GATGCGGACTCCGGGAGCAGGAACAGCCTCTGTGGCCTCATTGGGGCTGCTTTGGCTTCTGGGACTTCCGTGGACCTGGAGCGCGGCGGCGGCGTTCGGTGTGTACGTGGGTAGCGGTGGCTGGCGCTTTCTGCGTATCGTCTGCAAGACGGCGAGGCGAGACCTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018170:ENSRNOT00000024659:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GGACGGACAGGGCAGAGG
R:
TCTCGCCTCGCCGTCTTG
Band lengths:
337-1995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]