GgaINT0050388 @ galGal4
Intron Retention
Gene
ENSGALG00000011052 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:HGNC:26836]
Coordinates
chr7:19504206-19504804:+
Coord C1 exon
chr7:19504206-19504323
Coord A exon
chr7:19504324-19504729
Coord C2 exon
chr7:19504730-19504804
Length
406 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
ATCTCCTGTATTTTTTAAAGGAC
3' ss Score
8.32
Exon sequences
Seq C1 exon
ATAGAAACAGATGACCATACAGCCCTGGTTAGTAAGCCCAGGAATAAAGGAGGAAATGGTGATCTGGCATCAGCTGGATTTAACATTATCAACTCCATTATAGGATCAGGTATTATAG
Seq A exon
GTAAGTGTACTTCACTATTGTGTGTTCAGCCCTGTTTATGCACACAAGACTATCCAGTGTTGATTAATGTGCTGTCTTCTTACTTTTTGCTGTTACTGCTGAAGATTTTTTTTTTCTACTTTTATTCTCTTTTTAGATGAAAATCCAATTTTGTCAGCTGAGACCAGGTCTGACTGTGATAAATATCCTACAGTCTTTTTTGCTGTAATGACCAGAAAGTACTGGTTGGGCAGGTGCTTGCTTCTCAGACAGAGGCAGCCCTTCGTCTTAACCTTTTCTGAAGTTATTAATTCTTTCTGGTCCAATCTGGGAGATCAAAAGCAGCGTATTTGTTTATTTTTTTTAATCCAAATATTTCTTTATTTTGTTCATCATAAATATTTGTAATCTCCTGTATTTTTTAAAG
Seq C2 exon
GACTGCCCTATTCAATGAAAGAAGCTGGTTTTCCTTTAGGAGTACTGCTTCTGTTTGGGGTTGCCTATATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011052:ENSGALT00000018002:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149013=Aa_trans=PU(44.0=55.0)
A:
NA
C2:
PF0149013=Aa_trans=FE(50.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAACAGATGACCATACAGCCC
R:
TGTGATATAGGCAACCCCAAACA
Band lengths:
190-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]