DreINT0157726 @ danRer10
Intron Retention
Gene
ENSDARG00000021455 | strbp
Description
spermatid perinuclear RNA binding protein [Source:ZFIN;Acc:ZDB-GENE-030729-18]
Coordinates
chr10:9888730-9890803:-
Coord C1 exon
chr10:9890651-9890803
Coord A exon
chr10:9888865-9890650
Coord C2 exon
chr10:9888730-9888864
Length
1786 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAA
5' ss Score
5.13
3' ss Seq
ATAGCATGTTCTTTATCCAGGTA
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTGCTGCAGGCGATGGGTTACCCTACTGGCTTCGACACAGACCTGGACTCCATGAGTGCAGATGAGAAGTCAGATGGCGAGGGAAAGAGTGAATCCTCCACACACTCAAGCAATAACACAACACACTCCTCAGACAGCTCCAACACATTGGAG
Seq A exon
GTACAAGCCATACCAACGATGTTTATTTTATTTATAACATCTCTATCTTTCGGCTTCAAGTCAGTTCAGTGTTGATAGTTTAGTTAATCCTAAAAGTAATCCTTTAAGTTTTAATGTGTGGAGTTCTGTTTCTGGGTCCAAGCTTCTGCTCACTTGATTTGACAGACAAGTATGTAGAATGTGGATGAACAGTAAGTTTATGGATGGCAACGTATTCACTGACAGTCATCATAATTCACAGTATGAAGTTGAGACTGTTCTCTTCAGCAGTTGTTATCATGGAATAACATGCCATGAAATGTCATGAATGACCAATCAGAATGAAGTATAAAAGACAGCCATGTAATAAGTAAAGGATAAAGTACATTCTGACGGTTTGCTTGTGGAGGGCCATCACAGAGGGCTGTGTGTAAGACTGAAGGGCTTTTGTTCCATTAAAACAATTGCCTTAATGTACTTTATTTCATGGCTACTTGCCACAAAACATTCAAATTAGTCAAAACATTATTCTGAGATGTAATGGTTTATTAATTTATTTTATTTAATTTAAGTTTTTTTATTTAATAAAATGCAAAGCTGACAGAAAAAAAAAAACGGCTGAATATAGCATACACTAACCTAGGTATTTTTCAGTCACAAGTTGATGCCTAACTGTCAAATACAGCAGCACAACAGACAAGCATATAAATATGAATGTGAATGTATTCATTAGCTATGTTTCAATTTACTTATTTTTATGCAAATTTTGAAAATGCGCATAAAAAACGTATGCGCATAATTGAGTAGGATAAACGTTTTATTCGATGAGATATGCATAAACTACAATGAAAACACTTTTACCGCACAAATTTCAGTATGCACATTAAAATAGGTCGATTGATTGTGTGATAAGACATCATGTGATGATAAAAATGTGCATAAATGGACAAATCAGCTGGCTGAGCACAATGTAAACCATCTGACCTTTTAATAATAAAACGGTAACACGTTTCGTAAAACGACGAAGGATGAAATTAGTTGTGTTTGAAAAAAAAAAACCTCCAAGATTATTAGTTATGTGTATGTCTGTTTAAACACGTGCCCAAAAACCAGACTTTTGCTCTGCTTTAAATCACAATACAGAATGCGTTTGGAAAACAGTGTCTATTTATCACTATGGAGCGCGTCAGCTGACAGTCACATTACGCTTTATGACTGTTTTGAGGATTGCATATGAAGGGGAGACGGCACCTGTAATGAAAAGAAAGAGAATCCTGACGTTTTTATTTCAAAGTGTTTTCGTGTCTAAACAAAGCGAAAGCACAGAACAGACTTACATTTAAGAACAAGGGCCGTCAGCAGGTCTGTTGTAGTGCAAGTTTAGACAAACTAATTAAAAACCGCTCTCAAAAAACTCCCAGATATCAAGCACAGAGCACAATGGAAATATAAAAGCTGGAGTCAGGAAATGAAAATTGTTGCGCACCTTCTGAATGTAACTCTTGCATCGCATTGGGGATATCAGAATTCTGTGAATTGAATTATTCATTTGTGTCCAATAGATTACTAACATGTTTGACATTGAAGAAAAGCCTCTACTGACTTTTTTTATTGAACATGCATGGAATTGAATATTTATTTTTTACTTTTGACCTAATTTTTGCCTTTGAACCTAGAAACTGTGAGACTTGCGTGAATAGCATACTACATGAAATTATATGCAGCTCTACAAAACACAATAGTGTTATTCAACTCATGTCAGTGCAATGTTGATTCAGTTCAGTTTTATAGCATGTTCTTTATCCAG
Seq C2 exon
GTACGAACTCAGGGTCCTATTTTGACGGCCAGCGGGAAGAACCCAGTCATGGAGCTGAATGAGAAGCGGCGCGGCCTGAAATACGAGCTCATCTCAGAGAGTGGAGGAAGTCACGACAAACGCTTCGTCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021455:ENSDART00000129151:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.784 A=NA C2=0.711
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(6.2=7.8)
A:
NA
C2:
PF0003520=dsrm=PU(50.8=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCAGGCGATGGGTTA
R:
TCCATGACGAAGCGTTTGTCG
Band lengths:
286-2072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]