DreINT0150330 @ danRer10
Intron Retention
Gene
ENSDARG00000017047 | slc27a4
Description
solute carrier family 27 (fatty acid transporter), member 4 [Source:ZFIN;Acc:ZDB-GENE-050417-248]
Coordinates
chr10:10822121-10824572:+
Coord C1 exon
chr10:10822121-10822267
Coord A exon
chr10:10822268-10824177
Coord C2 exon
chr10:10824178-10824572
Length
1910 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTGGGTTATTTTATTTCAGGAA
3' ss Score
8.09
Exon sequences
Seq C1 exon
GTGCTGAAGGTAAGGCAGGGATGGCAGCCATAGCAGACCCGGAAAACAATACTGACCTAGCCAAGTTTAGCAGGGACCTGGAGAAGGCCCTGCCACCCTATGCCCGTCCTGTGTTTCTGCGCTTTCTACCAGAAGTGGACAAAACAG
Seq A exon
GTGAGATTTCACAAATCTTAGGGGCATTGCACAAAAGCACGATAAAAGATTAAGCTGAAATATTCAAACTCTCCCAGCTGAGTTTAGCTTTGACTTGGTTAGATGAAAGTAGGCTAAATTAAGAAATATTAACTTACTATGATTTATTTTTTTTTATCAGCCAGGCTAAGAATAATCCTAGTAAATTATCTATTGATGCTACTTGAAATTAATGTGCTTAACAAGCAGCTCCATGTTCTTTTAAAATATTTTCCAGCTTTTAGAATTAAAAACATATATGTTTAATTGTATTGGCAATGATTTTATATTTGTTCTTAAGGAAAAAGAAAAGAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTACTCGCAGTGCGATATGGCTGTAGGTCGGCACTGATGGGAGGCGTGCGTTGGCTAGAGGCTGCAGGCCGAGTGTTTTAGTGTCTCACCAGTGACTTTATTGTATAAACGGAATATCATATGAGTGCAATAGTTTGACGGCCCCATCGTGTATATAAAAAAGAAAATCAAACACAGAGAGTCTTAAAAAATCTTTTTGTAAGAGGAACTACTTTCATCCTCTGTTCATACACCTTTGCAGCTGAGCAATAGAATAGCAGAAACTATTGCTACTTCACAAACATCACTTTACACAAGAATTATTCTAATACTAGCTTTATGGCTTAAGTGATGAAAAAATTTTGCTCACATTTTAAGATAATAAGGCTGAATGGCATGAAATGCTATAAATCTACAGAGAGTTCTCAATAGTTCTCTGTTGCAATCGGGAGATCACAACAATTAACCCTGAAAAAGTCAAGAGTAAAGCAAACTCTACCAGATTACTATGGTGTAAATACAGCACTACAAAATACAAAGGGAGAGATTGACTTATCTGTTTTAAAATGTTTTGTTTAGCTGTAGTTTGAACCGTACACTGAAAAAATGCTGTTTTTCTCCACTGAGGACTTAAGCCAGGGGTGTCAAACTCAATTCCTGGAGGGCCGAAGCCCTGCACAGTTTAGTTCCAACCCTGCTCCAACACACTTACCTGTAGGTTTCAAACAAGCCTGAAGGACTCAATTAATTTGATCAGGTGTGTTTAATTAGGGTTGGAACTAAACTGTGCAGAGCTGCGGCCCTTTTGGAACTGAGTTTGACACCTGTGACTTAAGCGGTGCCTGTCGCCATCTTGTGCCGGAATGTCAACCATCTTTGCTCTGCTCTGTATCTCCAAAATTATAAATATTTAAAATAGGCACTATTTTCATAAATAAACTGGCTAGTTGCAATCTAAACAACTACATTCTTGCCTGAAATACCTCAAAAGAACATTATGTTGTCCAACAGTTGCAATATTTGACTAACTGTAGTCCTCTGCTCACCACTCGTGTGGGTGGAGTAATACACAAGGGTGAAGAGGCTGTATGAGTGCTGATATTGCTTTAAAATCTTACAGCTATCAACTAATCAGATTCGAGAACCAGAAAAATATAAATAAACTGTTGTATGTAAAGATGCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACATACATATAAATATATAAATATATATTTGATTTCAGGCTGTATGACAAATAAAGTAATTATTTATTTATTTATTTCAAATTATTTATTTATTTATTTCAACTTTGAAGAATTATACAGTGCCTAAATAAATTCATCATACGATTTTCTTTAGGCACTATATAAATCTTCAAAGTCGCAATGGTATTGTAATTCTGAAGTTAACTGTTTATGTATAGGCTTGCTGTTTTAACTGTTTGGGTTATTTTATTTCAG
Seq C2 exon
GAACTTTTAAATTCCAGAAGACAGACATGCGACGGGACGGATTCGACCCCAACATTGTTTCCGACAAACTCTACTTCCTGGACTGCACTAAAGGACAGTATGTGGAGCTGAATGCAGAGCTTCATCGCAACATCGTCTCAGGAAAGCAAAAATTATGAGACTACTGCCAAGCTCCACCCCATTTCCCTCAAAACCCCGCCTTCAAGACCCCTCAAACCCCGCCCTGTCCTCATAACTCTGCCCCTCGATACCTCAGCAAACACAGTGAGGGGCCGCAGGAATGCATTCTGGCTGCATATTCAGATCCCCGTCTATTCATTTTCACAGCACACCTCTCTTACAAAACAGGACTGAAGAAGCATTCAGCCATCGTGAAAACAAAAAAATTGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017047:ENSDART00000004181:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.000
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAGTTTAGCAGGGACCTG
R:
GAGGTATCGAGGGGCAGAGTT
Band lengths:
342-2252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]