RnoINT0137302 @ rn6
Intron Retention
Gene
ENSRNOG00000014369 | Slc27a4
Description
solute carrier family 27 member 4 [Source:RGD Symbol;Acc:1307383]
Coordinates
chr3:8366930-8368856:+
Coord C1 exon
chr3:8366930-8367324
Coord A exon
chr3:8367325-8368697
Coord C2 exon
chr3:8368698-8368856
Length
1373 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGCAGTGTCTCCTCTTCAGCTG
3' ss Score
6.31
Exon sequences
Seq C1 exon
CGGCGGCATGGTGCTCCTGAAGGTGAAGACCAAGGTCCGACGGTACCTTCAGGAGCGGAAGACAGTGCCCTTGCTGTTTGCCTCAGTGGTTCGGCGCCACCCCGACAAGACAGCCCTGATTTTCGAGGGCACGAATACTCACTGGACCTTCCGCCAGCTGGATGACTACTCCAGCAGTGTGGCCAACTTCCTGCAGGCCCGGGGCCTGGTCTCAGGCAATGTAGTTGCTCTCTTTATGGAAAACCGTAACGAGTTTGTGGGTCTGTGGCTAGGCATGGCCAAGCTGGGCGTGGAGGCGGCACTCATCAACACCAACCTTAGGCGGGATGCCCTGCGCCACTGCCTTGACACCTCAAAGGCACGAGCCCTCATCTTTGGCAGCGAGATGGCCTCAG
Seq A exon
GTGAGCTCTACGTGGGAGACCCACGGGACCTTGCACAGCTGACCGCTCTGTTTTATCCCTGAGGGAGGCTGCATGAGTCTTGGCACCAGAGCTTCTGGACACAGCCAGGGATGCTGCAGTGCCGTTATGAACCACAGGTCCCCTGAGCCTCAGTTTCCCCACCCGAAGCACCACAAATCTCAAAAAGGTCTTGCTCTTAAGTATCCACAGAGTGGCCAGCGCTGTCCGGTCCTGGGTAGATTGGCCTCGTCTACTTCATCTATAAAGGGGGAGCAGAACTCGGTCCCTTCTTTCCTCTCAGACCTGATTTTACTTACTGCTGAATCAGGGACCGGCAGTGCTGTGCAAAGCTTTGATCCTCACTAGGACTGAGGAGACAGCAATTGTCATCTTGGTTTTTGGACTGCGAGACAGGTTGGATGGGAAGTGCAGTGTTCACCCAGAGTCACACAGACACAGCAGGCTTAGGAGTTGATCTTGGGCTGGACCACAGTCTTCAGTCTCTGTTCCTATGCTACTGTGGCTGTGAGGTAATAGGAGAGGCATTAAGATGCTCCAAGTGGAGAAGAAAGAGTACAGTAGGAGAGAAGCCCTTAGGTCAGTCAGAGGGAAGCCAGAAAGACTGAGGACATAGCTTTCTTGGCTTCCTCAAGGCCCTGGGTTCCATTCATAGCACTGAAGAAGGAATTTAAGGCCAGAGAAAGCAGACCAGCAGGCCAGGATTGTCTCATGCCCAGGGTAGATGGAGTCTCTGTAGCTCCAAGAGGCCCAAGAAAAGTTTTTTTGGGAATGGGATCCTCCTCTTGTCCTCTGTCTCTGACAAAACACCATAATAGAGCAGGTAAAAAAAAAAAAAATTCAGTGTGAGATTGCAACATCTCTTCCACTTTAGCATCACTTTCCCCATCTGTAAAATGGGCTGATGGTAGCTAACATGATGTTATATACCAAGAATCCCAGCACTAGGAGGCAGGAGGATTGGATTGCATAGCATTATCAGGCCAGATAATAGCTACTTTCCTCCCCACTCCTCTTCCTACTCCTCTTCCTCTTCTTCCTCCTCTTCCTCCCCTTCTTCCTCCTCCTCCTATCTCTCCTTCTGTTCTTCCTCTTCTTTTTTAGCAGGGTCAGAGGGCAGGGAGGAAGGGAATTGGTGTTGGTAGCTACCTCCCAGTTCTGTGAGCAGGAGCCCATGAGTAAGCCATCGTGGTTCCTAAGAAGTTCATGGGAAATGCATCTCTTATCAATAGTAAATGTGTTTCATCCATTCCCCACACCAGCCAGTCTCCCCTGACTGTCAGCCATGCATGACAAGGGTCCTGGGAACACCGGTTTCCTAGCCTGCGTGCTGACCTGCAGTGTCTCCTCTTCAG
Seq C2 exon
CTGTCTATGAGATCCAGGCTATCCTGGACCCCACACTCACCCTCTTCTGCTCTGGTTCCTGGGAGCCCAGCACCGTGCCTGCCAACACAGAGCATCTGGACCCTCTGCTGGAAGATGCCCCGAAGCACCTGCCCAGCATCCCAGACAAGGGTTTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014369:ENSRNOT00000019500:3
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=0.028
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:
GACAGCCCTGATTTTCGAGGG
R:
CCAGAGCAGAAGAGGGTGAGT
Band lengths:
342-1715
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]