DreINT0158046 @ danRer10
Intron Retention
Gene
ENSDARG00000007603 | stxbp2
Description
syntaxin binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2482]
Coordinates
chr3:53017090-53019622:+
Coord C1 exon
chr3:53017090-53017250
Coord A exon
chr3:53017251-53018816
Coord C2 exon
chr3:53018817-53019622
Length
1566 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
AATGTGTTTTTGTTCTCCAGGAT
3' ss Score
10.51
Exon sequences
Seq C1 exon
CAGCGCACGGTTTGGACACTGGCACAAGAACAAGTCTGCCACAGAGTACCGCAGTGGCCCTCGCCTCATCATCTTCGTGATTGGAGGAGTCACACATTCAGAGATGCGCTGCGCTTATGAAGTGACCCGCGCCACTGAGGGCAAATGGGAGGTTCTGATCG
Seq A exon
GTAAGAGGAAAACACTTAAGTGAAAACTTAAAGAAATCACTTCAGCTTGTCCTAACTAGTGTTGGAATATCTAATCAAAGCGTGTTCAATAGAAAAGGTCAGGAGAGGGTTTTCTTCAATGTTAAAAATCTTAATAATTTATTAGATACAAATAATTCATTACAGCCACAGAGTTCTGGTGTTCTCAATGCAATGCAAGAATTACATTCAGGAGGTGCGCAACAGTTTTCAATTGCTGACTTCAACTTTTATAGGCAGCTGATATTGACAGGTGGAGTTTAGAGTAATTCATCACTTGTCAATCATTCTGCAATCCTTCATTGGCCGCACCCATACATACATCCTCTTTTTCTACGAATTCCCTGCACAATGTTAAAAGCATCAGACTTCTCAACTGCAAATATTCTGTGTTCACTTTCAACCCGTCTCTGCTCACAGGAAGTTTAGCTGCAGAGCTCAAGTTAATTTTAGACAGTCAGGCCTTTGGATTTTTATCAGCTTCATCTACTTCTGCAAAAATGCTTCATTAGTATGCAAGGCGTATCACACTCAAGAAAAGTTCAGCTAATATATCACCTTTAATCAACACAAATATAATTGTTTAATGAAAAGAAAAAGAGACAAAAATAATTAAAAATTTTTTTTTCCACCATTAGATTCATTCAGTTTCATTGTGAATTCTTCCCAAACAGTTATTTACGTCAAATTGTGAAATTATATTCATATCACAAAATTCACTCATTCATTTTTCTTCGGCTTAGTCCTTTTATTCATTGTTGGTCGCTACAGTGGAATGAACCGCCAACTCATCAAGCATACATTTCACGCAGCGGATACCCTTCCAGCTGCAACCCTGCACTGGGAAACACCCATACACTCTAATTCCCACACATACACTATGGCCAATTTAGTTTACTCAATTCACCTATAGCGCATGTCTTTGGACTGTGGGGGAAACCAGAGCACTTGGAGGAAACTCACGCTAACATGGGGAGCACATGCAAACTCCAGACAGTAAGTTGGCCAGCCCACACAGTGTTGGCCAGCCCAGTAACCAGTTTAAACATTATTGCGCATGTCTGGGGTAAAATGATGGAGGAAGCATGAAGGATTATTCCAAATAATCTTGATGAATTCTGGGAGTCCTGCAAAAACGCTTTCTTTGCCATTCCAGATGACCATTAATAAGTTATTTGAGTAATTGCAGAGATGTATGCAGTCCTTCAAGCTCATGGGAGTCACACACAATATTAATTATTTTTTCCACTGCAGACCTTACTGTCATAATGAAATAATTAAAAATCAAGGCATGCTCATATTTTATTTTGGTAAAATAGGCGTAATCTAGGGGCCTTTGCCTTTTATATAAGCCACTTCTGATATCAAATGATCAACTAGAAGTCAAATTATTATTTGTTGTTCCTAAAACTCAGATAGGCGACAAGACTTTTGTCAGGTATTTTAGGTTTCAATAAGTGTAGCGCTGCTCTATAAAAAAAAAATGTACATTCACAACCTCACAGAAACATTGTAGTTTAAAATGTCAAATGTGTTTTTGTTCTCCAG
Seq C2 exon
GATCGTCTCACATTATTACTCCAACCAGCTTTCTGAATGACCTGAAGGAGCTGGACGCGTCTGCAACAAGTGTTGCACAGTAACCCCCTCTCACAGATTCATCCCACATGTGAACATTAAGAGTTTCTCCAATGACCAGTGAAAAAAAGACACATTTTAAATCTGCCTCACTGATTATTTGCTGTCTTTTAAAGTAATGATTTTAATTACGCAAATTAACTGGTGGTATATGTGTGTGTATATATATTCATGACCTATGCTTAATTTAAAAGAACAATTATATGTAAGACCACATATGTGAACGTAATTAGAATTCTGAGGCTGGAAATTGTCCACATAAATGGATTAAATCTCGCTCCGCTCCATTGAAATGCCAGTCCTGTCAAGTTTTGATGTGATTTAAGGACTTCTTTAGACCTGCACACTGGAACGAATGATCACACTGGATTTAGAGATATTATCTATCGCCTTGTGATTTATCATAAAGAATATACATTTTTATCTTACTTTAAAACTGCCAATGTGAAAACTTAAGGTATTTAAGATGAGGCTGTTTGTAGTAGAGCTGTCCAATTTTGATTTCCAGTCAGGTTTGGTTATATCTGCCTCTCTTGGTGAAGGGATGAAATGTGTCATCTCAGTATATATACAGTATGTCTTTTTTGTTTGTTATGCTCTGAACTTGTGCACTTTTTTTCTTATACTGTTACTGTATCACATATAGATGGATGTGGTTCACTGGGTCTATTTGTCTTTTGTTTCTGTTAACATTAATTCTAAATAAAATTTGCTTATACCTCATTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007603:ENSDART00000031234:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(9.7=100)
A:
NA
C2:
PF0099518=Sec1=PD(2.5=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGCAAATGGGAGGTTCTGA
R:
GGACAATTTCCAGCCTCAGAA
Band lengths:
358-1924
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]