GgaINT0145341 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NBU4]
Coordinates
chr28:3450865-3451447:+
Coord C1 exon
chr28:3450865-3450975
Coord A exon
chr28:3450976-3451295
Coord C2 exon
chr28:3451296-3451447
Length
320 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TTTATATTTGTGCGTTTCAGAGC
3' ss Score
9.2
Exon sequences
Seq C1 exon
ATGGGGCATTTTACTCAGCTACTTCCAATAATTTCTTGGGAACAGAACCTATAATACTTCGCAGCATGCAAAATCCTGTAAGAACAGAATTTAAGACATCTTGGCTAAATG
Seq A exon
GTAAGAAGCTTTTATTCATACTTCAGGCTCTCGAGCATCTGTTGGTGTTTGAACCATACCCAGAATGCAATAGTGTGTTAAGTTGGTTTGGCAGTGTCCAGAAATGAGGATTAAAAACATTGTGCCTAAGAACTACAGTGATGAGACAAGCCTCTGCCTCTCTCCAATTTCTTCTTTTAGTTTTTGGTATTTGTGAATCCTTTTCAACTCTTTACTCCACAAAAAAAGAGTTTAATTAGACTTACTTTTAAATCAATATCTGCTATTTGTGAGTTTTATTAGTGCTAACTTAAACTGCTTTTTATATTTGTGCGTTTCAG
Seq C2 exon
AGCCAAGCTTTGTCGGCATGGAAATAGTACCTGAAAGTGAGTTTAGTCCAGATGGAGATGATGATAAAATTTATGTGTTCTTCACTGAAACAGCTGTTGAGTTTGAATTCTATGACAAGATTCTGGTGTCCAGAATTGCCCGTATCTGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003058:ENSGALT00000004831:6
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:
PF0140314=Sema=FE(8.5=100)
A:
NA
C2:
PF0140314=Sema=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGGCATTTTACTCAGCTACT
R:
TTGCAGATACGGGCAATTCTGG
Band lengths:
262-582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]