GgaINT0001457 @ galGal3
Intron Retention
Gene
ENSGALG00000013303 | SLC27A1
Description
NA
Coordinates
chrUn_random:28117440-28118484:-
Coord C1 exon
chrUn_random:28118323-28118484
Coord A exon
chrUn_random:28117510-28118322
Coord C2 exon
chrUn_random:28117440-28117509
Length
813 bp
Sequences
Splice sites
5' ss Seq
ATGGTTGTG
5' ss Score
-7.21
3' ss Seq
CCTGTTTTCTGCTCTTCCAGATC
3' ss Score
11.5
Exon sequences
Seq C1 exon
CAATAACCGAAGTGAATGGCATGCTGGGGAAGAACATGGCCAAGTTCTGCTCTGGTGACTACAACCCAGAAGTTGTTCCTGCAGAGACCAGGCACTTGGATCCTCTTCTGAGCACCGCATCGAAGTCACCACCAACTCAGATCCCGGCCAAAGGCTTGGATG
Seq A exon
GTTGTGTTATCAGCAGTCTCTATTTCTTAGTGGGATGTCCATAAGAATCATAGAACCGTAGAATCATCAAAGTTGGAAGAGACCTCAAAGAGTCCAACCATCAACCCATCACCACCATGCCCACTAAACCACACCATGTAGAGCTGGGCTAGGAGACAGCAAAAGAGAGATTAAATCAACCCTGTTTGGGGTCACAGATAGAAAAAGGAAAACAATAGGGAAAAGGAACAAAATGTAAGATTGTGGTTGCAGGGTATTCTGGATTAAGTTTCTCAGTAGCTGAGATTTGCAAGGAAACAAAATATAAGATCCAGGTTTGAAGGCATTCTGGATTAATCTTTTCCATAGCTGAGGTTTCCATGCACATCTGAGATCAATCAGGCGTGAGATTCCCATCTAGGAATTTGTTTCCCATGGAGGAACAGTGGCGTGGAAGAGGCTGGAGGCATTTCTTCCTTTAGAGTTTTCATTGCAGGGCCTCAGGTATCTCAGCTTTTCCTCTAGATTGCTTCGGAATTAGGGTTTGAGCTGGAGAGCTCATCAAATTCCAGGGCCATTTGCATAGAGGTGTGTGGGTCTCATCCTCGGAGCTCTGCAGACTCTTTGTATGTGTTTATTTATTTACCTCTATGGACAACATCCAGACCTTCTCCTAGGGGTATACCTCAACGCCCGCGTCAGCCTTTGAGCTCTGTGGTCAGCGCCCATCCTCAAGTGCTCTGATCGGAACAAAGCCTAAAAGCACCTTTTTATGAGGGGTTTTCTCAGAGAGCTGAGGTCAGTCGGCCTGACGCCTGTTTTCTGCTCTTCCAG
Seq C2 exon
ATCGTCTCTTTTACATCTACACTTCGGGTACGACGGGAATGCCCAAAGCTGCCATTGTGGTGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013303:ENSGALT00000021722:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(12.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(5.2=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:
ATAACCGAAGTGAATGGCATGCT
R:
CTGCTGTGCACCACAATGGC
Band lengths:
230-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]