RnoINT0137269 @ rn6
Intron Retention
Gene
ENSRNOG00000018170 | Slc27a1
Description
solute carrier family 27 member 1 [Source:RGD Symbol;Acc:620927]
Coordinates
chr16:20014326-20016190:+
Coord C1 exon
chr16:20014326-20014472
Coord A exon
chr16:20014473-20014964
Coord C2 exon
chr16:20014965-20016190
Length
492 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
CTGTCCTTCCTAACTTCCAGGCA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GAGTGGAGGGGAAAGCCGGCATGGCGGCCATTGCAGACCCCCACAACCAGCTGGACCCTAACTCAATGTACCAGGAATTGCAGAAGGTTCTTGCATCCTATGCCCAGCCCATCTTCCTGCGTCTTCTGCCCCAAGTGGATACAACAG
Seq A exon
GTACAGTCCCTGCCTGGGAGCCATTTCCTTCTTTACCCTAATTTAGGCTTCCACTCCCCTGTGTAAATGTGGACCCACAGGCACCTGCCCTGGAACTCAGACCCACTTGCCTCTGAGGGCTAGGGTTACAGGCATGAGCACCACAGCAGGGACTGCAGAGCAAGACTGGTTTCTAAGAAAATAACACTATCTAATAGTAACAAAAACCCAGGATACCTCTTTTGGACTTTTGGGTGCAGCTTCAGATACAATGTGGCTCAGCTCAGAGACAGCAGCATAAAGTAGCTGAGAGAATGGACACTTGGGTGTGCAGATCAAACTTCAATCATAGCACAACAGGGCCACACAGCCAGGCTTGCCTCTGGCCTGGGAACTGGTATTTTCTTCCTGTCTTGGGAACCGAAGAGTGTTTACAGGGAGGTGTCCACTGCTGCAGCGATCTCTGTGCAGAGTTGCTTCAGGGTCCATACCTCTGTCCTTCCTAACTTCCAG
Seq C2 exon
GCACCTTCAAGATCCAGAAGACCCGGCTACAGCGTGAAGGCTTTGACCCCCGCCAGACCTCAGACCGGCTCTTCTTTCTAGACCTGAAACAGGGACGCTACCTACCCCTGGATGAGAGAGTCCATGCCCGCATCTGCGCAGGCGACTTCTCACTCTGAGCCTGGTGAGTGGGATGGCCCTGGACTTGTGAGACCAGGGAGCCGGACACCCCTGTTCAGGTGTTTCTCCTGCCTGGCCACGTGGCCAGCAGCACCTGTGGGTGCAGGAAACTGGAACCTGAGTGGCCGGGTGTCCCTTTCCTACAACCCACTATGCACACATCTAGCCTCTGCCTTGGTCTTTTTCTCCATCTCTTTCCTCCGTGCCCAGCAGGAGCCCCACAGACACATTGGCTGCTGTGTCCTGCAGTGGGACCGGTGTCTAGGGGTCCATGCTGCAGGCTGTGACCCGCACTGGTGCCCACCTCCCTTCCCCATTGTGCCTTAGGTTCCTCCACTGTTTGCCGGTGAAGCAAGTGGGGACCCACATAGCTGTTGTCCCTGCTGAGGGTTGGTAGCAAATGCACCCTCATGTCAGCTGGGAGACACATGCAGTCTCCCACTGACCCCCAATCAACTGAAGATACTGTTTTGTATTATTGTTTTGAGATAGGGTCTCACTGTGGAGGCCAAGCTGGCCTCAGGCTCACCACTCTACTGCCTCCGGGCACCAGCCTGCAGTTTGATGACATGTATGCACTATTGTTCTAAGGGTCTTCTGAGTCCCTGCTTTCCCCTCATGTCCTAAAACCTTCCAGAACTGACTCTGATCACTTGGATGTAGCTAGTGTTGGCCCTGCCCACGTGTGTCAATTCAGGGGTCCCCAGGCATCATCTCTGGAGGCCCTAACCTTGGCAAAGCTTGGATGTCCTCACATCACAGCAGGAGACCCAGGAAGGTTGCTGTGGTGTTCTCTTGGGCACCCCCTGGCGGCAGCCCTGGACATGCTTCCCTGCTGTGGATAGCCCAAACCGTTGCCTATGACATTTGAGGTCTACCCTTCTGGCTCCCATGGTCCCCATTGAGATCTTTGGTGACTCACCTCAGCCACCAAGCCAGGCCTCTGCCTTCCTTCAGCTCTAAGGGCATGAAGGGTGTGGACAGAGCAGCCACAGGCTGCCCACAGTCACCCACATGCAAGTGTTATTTCCTTGTTTGTTTTAAAAAAATAAACATGCTGAGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018170:ENSRNOT00000024659:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=FE(64.5=100)
A:
NA
C2:
PF131931=AMP-binding_C=PD(3.9=5.7)
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:
CCCATCTTCCTGCGTCTTCTG
R:
GGTTGTAGGAAAGGGACACCC
Band lengths:
347-839
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]