GgaINT0124580 @ galGal4
Intron Retention
Gene
ENSGALG00000001187 | STRBP
Description
Spermatid perinuclear RNA-binding protein [Source:UniProtKB/Swiss-Prot;Acc:Q5ZIL4]
Coordinates
chr17:8913161-8913952:-
Coord C1 exon
chr17:8913841-8913952
Coord A exon
chr17:8913254-8913840
Coord C2 exon
chr17:8913161-8913253
Length
587 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CAAGGAAATTTATACCCTAGGTA
3' ss Score
4.37
Exon sequences
Seq C1 exon
CATGCCCTCAGATTATCAGCCTTTGGTCAGATTTATAAGGTTTTGGAAATGGATCCCCTCCCATCAAATAAATCATTTCAGAAATATTCCTGGTCAGTAGCTGACAAAGAAG
Seq A exon
GTAGGTATTGCTTGCTCCAGAAGTTACTAATTTATAGGTAAACTAGGAATTAATGTAGAATGAAAGAAATTCCTGAGTTACCTGCTATGAATATAAGGGGAAAGCTTTTCTTTATGTTCAATTTCTGTTTGTTTTTTTTTTCTTTTATGTAATTATTTTGTTGTTAGGAGAAAGTGTGGAAGTTCTTTTCTCCAGAACTACTAACAGAGTAGTAGCAGTTCAGCTAGGGTACAGATGATTTTCCTTAAGCACAAAGTCATTTTGGGATCTAACGATAAAATAGTTATGATTCTTACGCTGGGGAAGGGGAGAATTTAGACTGGTGAAAAAGCACAATGAATGTCCATTGCAAGAATTTCATTACTTATATGGCACATAATATTGGAAACAGACATCTTCCACGGCTTAGCACAATGAGTAATAAGCTACTATTGTCTCACACGTACAAATAAGAAAACTTTGACTGAAGGTTGAGGGGCTTTTTCATAGTTATAGACATGGAAATAACAGTATGAGACTACTGTGACTATTACAGAATTTTGTTTTTCTAGTAGTACATTCGTATTACAAGGAAATTTATACCCTAG
Seq C2 exon
GTACAGGCTCATCTGCTCTCAAGAGACCATTTGAAGATGGTGTTGGGGACGATAAAGATCCAAATAAAAAGATGAAGCGTAATCTGAGGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001187:ENSGALT00000001802:10
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=0.781
Domain overlap (PFAM):
C1:
PF075289=DZF=PD(8.9=57.9)
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:
CATGCCCTCAGATTATCAGCCT
R:
TCCTCAGATTACGCTTCATCTTT
Band lengths:
202-789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]