GgaINT0001460 @ galGal3
Intron Retention
Gene
ENSGALG00000013303 | SLC27A1
Description
NA
Coordinates
chrUn_random:28115930-28117162:-
Coord C1 exon
chrUn_random:28117053-28117162
Coord A exon
chrUn_random:28116140-28117052
Coord C2 exon
chrUn_random:28115930-28116139
Length
913 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CTTTGTGTTTGCTGCTTCAGATT
3' ss Score
9.34
Exon sequences
Seq C1 exon
GTAACATCATGGGAGTTGGCCAGTGCCTCATTCACGGCCTCACCGTGGTCATCAGGAAGAAGTTCTCTGCCAGTCGCTTCTGGGATGACTGCGCCAAGTACAGATGCACG
Seq A exon
GTGAGGGCTCTGCTGGCTCGCTGCTTTACCACCCATCTCTGCATGATCCCCTTGTCCCAGAGCCGTGGGAGGAATCAGTACGGTTTGATATTGGTTGACGTAATGAATGGAATTAGAAGTGTGACCTCAATAGGTGGGATTTCGAAGAGAGATCCCAAGCGCTGCCCCTGAGCTGTAGTTTGGACAATTAAAATCCTCGTGTATCTCCAACAATCTGTTTTATTCCCTTTACTGAATCTTTCAGTGGGTTTTGTAGAAATATTCCCCCCTCACGATATTCTTGGTGCTTGATAGAAAATAACAAGGCTCTGATAAAGGGAGAGTTTCTGTCCCCGGTGAAGGCAGTGGTAGAAATGCAGTGTGTTTCAGGATATGATGGAATGGAGTACAAACACAACAGCTTTTAAATCCAGCACTTTGGTAACTTCAGCCTCAGGAAGAAACAACAGCATCCAAACTAACCTTCATCAGTTCTCTATAAGGTGTGCTGTGGTGTGATTGAACTGCCAGTGCCATCGTAGGGATGTAGGATCAAGGCTTAGGGCTGTCTTTCACCCATCCTCACCTGCTCGCTCTACAGAATCACCAAGGCTGAATCTTAGAACACAGACATCTGTTGTAATTGGGGGAAAGGTCTTTGAGAACTTGAGTTCTCTTGGCAGCTCGTTGTCGCTGAATACTTGCTTGTGTCGGTGCCAACATCACCTACTAATTTAAGCAGCTCTTTCTCCTTCCTGGTGTTTATCTTACCCTTCTCCCATAAGGAATATTTATAGGTGGCAATTGGATCCCCACTCAGCATTCACTTTGTGACATCCAGCTTTTTGCTTACAGCCGACCACTTGTTTCCCCAGTCTTCCCGGAGCGCGCCCAGAACCCATCCTGAGCGATGTCTTTGTGTTTGCTGCTTCAG
Seq C2 exon
ATTATTCAGTATATCGGGGAAATCTGCAGGTATCTTCTGAACCAGCCAGTCCGAGAGTCGGAAACGCAGCACTGCGTGCGGCTGGCAGTGGGCAACGGGTTGAGACCCACCATCTGGGAGGACTTCACCAAGCGCTTCCGCATCAAGCAGATCGGGGAGTTCTACGGAGCCACCGAGTGCAACTGCAGCATTGCCAACTTGGATGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013303:ENSGALT00000021722:6
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=FE(8.2=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(15.7=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:
GTAACATCATGGGAGTTGGCCA
R:
TCCCATCCAAGTTGGCAATGC
Band lengths:
318-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]