GgaINT0124585 @ galGal4
Intron Retention
Gene
ENSGALG00000001187 | STRBP
Description
Spermatid perinuclear RNA-binding protein [Source:UniProtKB/Swiss-Prot;Acc:Q5ZIL4]
Coordinates
chr17:8906075-8908018:-
Coord C1 exon
chr17:8907878-8908018
Coord A exon
chr17:8906202-8907877
Coord C2 exon
chr17:8906075-8906201
Length
1676 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GCTATTATTATTACTCCAAGCAG
3' ss Score
-1.76
Exon sequences
Seq C1 exon
GTAGAAGTAGATGGCCAGAAATTCAGAGGTGCAGGCCCAAATAAGAAAGTAGCAAAAGCAAGTGCTGCATTAGCAGCACTTGAGAAACTGTTTTCTGGACCTAATGCAGCAAACAACAAGAAAAAGAAAATTCTTCCTCAG
Seq A exon
GTAAGAATTGTTGCTTGCTTTTCTGGTACATTTTGTTACCACAGCGCTGTGTCTTATGATTCAGGAGTCTCTACAGGAAGTAATTTCAGTGTTTTGTCTGATGGGCTCACAGTAAGGCTTCTGATTTTTATTCGACAGTAACTACAGTAGCGTAACAACACGGTATGATATTTGGGACCACACTGTACTAATGCCACTGAAATGTTTTCATATTGTTAAGGAGTTTAAGCTGAAGGAAATACAGTAGAAAAGGCAGCACAAAGAGGTGGTGATGAGCTGGAGGAAATACAGTAAGTTCAGTGGTTGAATGATGACATGGAAATCTATTCTTTGTCAGAGCCATACTGTGCTCCTCCATCACTTACACACATAGAGAATAAATTATGTATAGTTTGGCAAAGGCATTATTTCTAGGTTCTGGAGTAGGCTGAAATTTCTGTACCAGACTTGGCAAGTGAGACATTTCAGTTAGTGTGGAGCACTTCTAAAATTAAAAAAAAAAATCAAACAAAAAATAATCTTGGACTTTTCCATTAGGTTTAACAGCCCCAATAATCACTCAAGTTTAAGGTTGAACAGAACAGAAACTATCAACAGTGTCTTTCCCACAGAGAACTGCTGACAGAGAAAAACAAACAAACAAACAAAAAACCCTGAGGATTACCATCTCGGTCTCTTCTGTACAAATACATTAACATTAGGATTTTCTTGTCATTTCAGGAGCAGAATGTATCATAATATAGAGTTAAATGACAAGTCAACTCTTTTTGTCTTTGTTCTGTTACTAATAACAATCCTTGTTTTACTAAGACTTCTGGTTAGGAGTATTTCAATTTCCATTACTGTGCTGAAAGTCTACAAGATCAGAAAAACACTACCTCATAGGATAATGTTCCACAGGCAGCCAAGATATGAAGACTTACGATTCAGGCAGTTTCTAAATTGACTTTTTTCCTTTTTTTTTTCCTGTTTGCTTGTTCTCTTTTTTGCAGAAGGCAATGATGGCAACAACTTCTCTTTGAATTAATGGGATATGCATGATTTTACAGTGTTTCCAGAAGACAGCCGGGGGGGGGGGCATCTAGTAACACAAAGCTCTGCTCTGATGCAGTAAGCAGTAACAGCTTCTGCAACTCCTTGCAGTATTCTGAGATCTTTTGACAGTGGAAAAGAAAATGCTGATCTAAAGCAGTCTAGTGTTTCTATGAGGTGGTTATTTGTCTTTGCAATGAAGTCCTGGCCCTGCTGAAGATATATGGGTTCAGGGTGGTAGGAGAAAAGCAAAGGCCTTTTTATAGATCAGTGAGAGGCAGTTTGTAGGAAAAGACAACAGAGAGGCATACCGAAGAAAGGTGCAGAAACCAATCTACCACTGGGGTAGATCATGACCACACAACCAAAACTCCAGTAAATGAAACATAGCCTGATCATGCAGACTGCAAGGTCTGAGTAAGGTGAACATGAACATCAGAACTAGAACTTGTTTGCTGAAGGGACTTGGTTTCTGTCAGTCATTCTTTTCACATTACTTTTCCATTCTGTACTCTGCCTTAAGCAAGGACAGCACATCAAGCATGCTTAAAGTGATTCAGGAAAGATAGTGATTTAATGTACATGGCCTTTTGTATTTCCAGCAACATTTTAACATTCTGAATTGCTATTATTATTACTCCAAG
Seq C2 exon
CAGACTAAAGGAGTTGTCAATACAGCTGTTTCTGCAGCAGTCCAGGCTGTGCGAGGTAGAGGACGAGGTGCTTTAACAAGAGGTGCATTTGTTGGGGCAGCTGCTGCTACTGGATACATAACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001187:ENSGALT00000001802:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.362 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(46.0=61.7)
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:
GTAGATGGCCAGAAATTCAGAGGT
R:
CTGGCGTTATGTATCCAGTAGCA
Band lengths:
262-1938
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]