DreINT0157728 @ danRer10
Intron Retention
Gene
ENSDARG00000021455 | strbp
Description
spermatid perinuclear RNA binding protein [Source:ZFIN;Acc:ZDB-GENE-030729-18]
Coordinates
chr10:9887971-9888465:-
Coord C1 exon
chr10:9888325-9888465
Coord A exon
chr10:9888104-9888324
Coord C2 exon
chr10:9887971-9888103
Length
221 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TATGTGTGTGTGTTTTGTAGAGT
3' ss Score
9.89
Exon sequences
Seq C1 exon
GTGGAAGTGGATGGACAGAAGTTTCGCGGTGCAGGGCCCAATAAGAAAGTAGCCAAAGCCAGCGCTGCCCTTGCAGCTCTAGAGAAACTCTTCTCCGGGCCGAATGCTGCTGGCAACAAGAAGAAGAAAATAATCCCTCAG
Seq A exon
GTAAAACTTTGCTTGCTTTCATTTGTGACCAGTAGCATTCAGATAGTTTTCGATGTTTAGCGTGTCCCTCAAATGACCTGGGTCACCATCTGTAAGTCATGACCACTCTGTTGGATATTCTGTAATCAATATTTCTCAGATGAGACTGAGACTTGGGCCAATGCTCATTAAAGCCTGTGGGGTTATTACTCTCTGTGTGTATATGTGTGTGTGTTTTGTAG
Seq C2 exon
AGTAAAGGGGCATTAGCTGCAGCCGCTGCTGTGTCTGCTGTTGCGGTTCAGGCTGCACGAGGCCGAGGAAGACCAACTCTCACACGAGGAGCCTTCGTCAGTGCTGCAGCAGCACCAGGATACGTCACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021455:ENSDART00000129151:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(46.0=61.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGATGGACAGAAGTTTCGC
R:
CTGGCGTGACGTATCCTGGT
Band lengths:
269-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]