DreINT0150311 @ danRer10
Intron Retention
Gene
ENSDARG00000104949 | slc27a1b
Description
solute carrier family 27 (fatty acid transporter), member 1b [Source:ZFIN;Acc:ZDB-GENE-061013-672]
Coordinates
chr1:57821946-57823955:-
Coord C1 exon
chr1:57823561-57823955
Coord A exon
chr1:57822108-57823560
Coord C2 exon
chr1:57821946-57822107
Length
1453 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TGGATCTGCTGTTTCTGCAGTGG
3' ss Score
6.19
Exon sequences
Seq C1 exon
TGGTCTGCAAGTGTTACTGCGCGTCAAGTTCTACATGCGTCAGTACATCCGCAATCGCAGCACCATCCCGTCTCTATTCGCCCAGCGGGTGGCGCTGCACCCGGAGAAAGCGGCGCTGGTGGACGAGTCGTCAGGTGAGGTGTGGAGCTTCTCAGAGCTGGACCGGCGCTCCAACGCAGTGGCGCAGTGGGTGCTGGCGCAGGGCTGGCGGTCGGGTGATGTGGTGGCCATCTTCATGGAGAGTCGCCCCCAGATGGTGGCGCTGTGGCTCGGGATGGCTAAAGTAGGAGTGGAGCCGGCGCTCATCAACTTTAACCTGCGCCGTGATTCGCTGATACACTGCATGGGCGTGTCTGGGGCGTGTGGGATGGTGTTCGGGGCGGAGCTTTTGGATG
Seq A exon
GTGAGAAGTGCTTTGTTATTATCATACTCATTATAATTATTATAATTATTTGTCAGTGCTTTTCAAATGATTAATCGTGATGAATTCATTAAATAAATCCAGTTGCATCCTGGTAATATTTGCTTTATTATTTGCATCCGAAATAAAAGCTTGTATTTGCGTAATACATGTATGTGGACTGTGCATGTTTATTTTGCCTGTATATATTTAATAAAAAATGTTTTATTTACATTTATAAATTAAATATGCATATCTAATACAAATTATATATATTGATTCAAATCAACATTATTGTAAAAATTTTTTAAAAATGTTCAGAAAAAGCTGAAAACATTGTCATGTAAACAGCCCCTTAGAAAGCTCAACAGCCAATCAGAAATCAGCATTCTGCACGTTATCAACGATATGTCTGTCTGTCCGTCCGTACATCCATTCATCTATCCATCTGCCCATTTATCCATCTATATCTATCTATCTGTCAATCCATCCGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTATCTGTCCGTCCGTCCGTCCGTCCGTCCGTTCGTCTATCTATTCGTCCATCCATCCATCCATCCATCCATCCATCGGTCTGTCTGTCAGTCCGTCCATCCGTCTATCCATCCGTCTGTTTATCTATCTGTCTGTCCCTCCATCCGTCCATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCCGTCCGTTCGTCTATCTATTCGTCCATCCATCCATCCATCGGTCTGTCTGTCAGTCCATCCGTCCGTCTATCCATCCATCCGTCCGTTTATCTATCTGTCTGTCCCTCCATCCGTCCATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCCGTCCGTTCGTCTATCTATTCGTCCATCCATCCATCCATCGGTCTATCTGTCAATCCATCCGTCTATCCATCCATCCGTCCGTTTATCTATCCGTCTGTCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCAATCATCCATCCATCCATCCATCCATAGATGTCTAACATGTTGCTGGATCTGCTGTTTCTGCAG
Seq C2 exon
TGGTGCTGGAGGTGAGGGAGTCTCTGCGCAGTCTCTCGCTCTTCTCCTGTGGTTCTGCTCCTGCAGAGATGCTGGACTCGCTGTCGGCTGCAGATCTGGACGCTCTTCTTTCCAAATCTCCTGAAACACCACCCGCTGTCGCACACAACAAGGGCTTCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104949:ENSDART00000159070:3
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(24.4=79.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCGTCTCTATTCGCCCAG
R:
CAGAGACTCCCTCACCTCCAG
Band lengths:
357-1810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]