GgaINT0115189 @ galGal4
Intron Retention
Gene
ENSGALG00000015850 | SCAF4
Description
splicing factor, arginine/serine-rich 15 [Source:RefSeq peptide;Acc:NP_001012840]
Coordinates
chr1:104004026-104004980:-
Coord C1 exon
chr1:104004867-104004980
Coord A exon
chr1:104004183-104004866
Coord C2 exon
chr1:104004026-104004182
Length
684 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTT
5' ss Score
8.4
3' ss Seq
TGTTTTTTTTTTCCCTCAAGATT
3' ss Score
8.16
Exon sequences
Seq C1 exon
ATGATACCACCGAGAGGATGTGCCTACATTGTAATGGTTCACAGACAAGATGCTTATCGTGCCCTACAAAAATTGAGCAGAGGCAACTTCAAAGTCAATCAAAAATCTATAAAG
Seq A exon
GTACTTCTTGGATAATGTCAAGCTGTTGTAATTACTGGAATTCTTTTTTTATTTATTCTAGATTTGTTGTTATTTCGGGCTTTTATATAGTCTGGATGTGGTATTCTATAAATTTATGTGAATGAACCACTTTATTAATGTGTATTCTTCCTCTTCTGTCATGTAATTAAAGGAACTGGTATCAGTTTCTCTGAAAAACTGCCAGTAACTGTGTAACTGGTGCAGTTGTGTAAATGGTGTTCTGGTCATTCTGGTGGACTGTAACTGTGGTTTTCTTGCTGCTGCTTAATGTTCTTATCTATAATTAAACACAGTTACAGTCCTACAAAGAGTGCTAATAATTAAGGAAGAACACACTCATTAGTCAAGTGTTTCCTTTTGTGGAACGTCATATTTGAGAGTGACACTGTCCTCTGAAGGGAAATAAAATTAATTATAATGAGTGGGGAACATTGGAAAAAAACTGCCTGTACGTGTGTTTGCAAATCATGTGCCAGAGTCAAGCAGAGACGTAGGAACTAATTGTGCCTTAAAAAAAAAACCCTCCTATTTTCAGAGTGTTCTTCCTGCTGTTTCAGTTAGAATATACTTGTTTGTTTTGTAGCCTTTTTCTGGATATGCTATTCTGTTATAAACCATTAAAATGACAACATTACTAACTGCATGTTTTTTTTTTCCCTCAAG
Seq C2 exon
ATTGCGTGGGCTTTGAATAAAGGAATAAAGCCAGATTACAAACAGTATTGGGATGTAGAATTAGGTGTTACTTACATACCATGGGACAAAGTGAAGCCTGAAGATCTTGAAAGCTTCTGTGAAGGTGGAATGTTAGACAATGAAACTCTTAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015850:ENSGALT00000025555:16
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=0.160
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(55.2=100)
A:
NA
C2:
NO
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:
ATGTGCCTACATTGTAATGGTTCAC
R:
CTGGACTAAGAGTTTCATTGTCTAAC
Band lengths:
254-938
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]