DreINT0083258 @ danRer10
Intron Retention
Gene
ENSDARG00000016939 | itgb2
Description
integrin, beta 2 [Source:ZFIN;Acc:ZDB-GENE-110411-4]
Coordinates
chr9:45175514-45177316:-
Coord C1 exon
chr9:45177259-45177316
Coord A exon
chr9:45175606-45177258
Coord C2 exon
chr9:45175514-45175605
Length
1653 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
CGTTCGAACTATTCTTGAAGTCT
3' ss Score
2.32
Exon sequences
Seq C1 exon
GAGATGCATCAGTCAGTGTGTCTGAAGAGTTTGCTGCTGTTGCTGGTGGGAACACAGG
Seq A exon
GTAGGTACATGACATACAGCTTGTGAAGGTTTCTTTAAAGGGGAAGTTCACTCAAAAATGAAAATACTAGCATCATTTACTTTCCTTCTCTTAAACACAAAAGATGATTGACACACAGGAAATAAAATACCATGTAAGTCAATGGCTACCATTTCCAACATTCTTCAAAATATCATCTTTTGTGTTTAAAAGGTGAAAGAAATGAGCTGAATCAACACAACTCTTGAAATTTGTTGGGGGTGGTATAACTTAATTGTTTTATGTTCAATCAACTTAAATTAGTAAAACAAATAAGTTAACTTAGGTTATTATTTTATGTTCAATCAACTTGAATTAACTTAATCTTTGTTGGGACAACATGAAGGAATTGTGTGGAACCCAGGATTTTTACAGTGGACTGCAAAAATCCTGGGTACACAATTCTTTCATCTTGTCCCAATACAAATCTATTAAGTTAACTTAATGTTTTTTTTATACAAATAAAAGTGCATGAAAAAAAAGATATCCCCCCAAAAAACCTATGAATTAAGTTGGTTTAACTCATTTTAAATAAGTAGTTTAAACAAACAGCAAAAGTCTTAAGCATACACTACAAAAAATCCTGGGTTTAACACAATTCCTTCATCTTGTCTCAATACAAATCTGTTAGGTTAACTTAATGTTAAGTTAACAAAAAAAAGTGCATGGACATAAAACAATCAAGATGCTTGAAGATGTGTTGGCTGTGTTCAAAAATCTAGTGAGGTGCCCAGATTCCATCTGCTAGTCTTCAATTGCTTTCTGCTGTTTGGGATCAAAGGTTTGAGAATGACAATAATATGAAATGCTTCTTGATCAGCAAATCAGCATATGTAACCTCAGACCACAAAACCAGTCATAAGGGTCTTTTGTTTTAAATTAAGATTTAAAGATCATTTGACAGCTAAATAACTGAATAAACTATTCATGTTTGATTTATTAGGATAGGACAATATTTAGTAGAGATAGAAATATTTGAAAATAAGGCATTTTAATATATATTAATATATGCCAAAATCTATTAACTAAGTATTAAATTAATCACCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTCTGGAGGATTGTGTGACTTTGAAGACTATAATAATGCTGAAATTTCACCTATGCCATCACATGAATAAATACAAAAATAAAACTACATACTAAAATAATTTCAGAAAGAAAAGTGTATTTTAAAAAATATTATTTCCCAATATTTATATTTTTAGTTAACTGTGATCAAATATTATATGCCCAGCCTTGTTGAACACAACATTTTTTAAAGCATTTTTAAAACCCCAAATTTTTGAATGGTAGCATACTCTATACTTACTAATATTTTCTTTAGGATGTGAAAATGGTATTTTACAAAACTAGATACATACATATTGCCTAATATTTGGAAAAGTCTTTCAATAAATTGCAATAAAAAGCCATGTAGATGGCACACTAGGTTTTGGAACAAAATCAAATTTATGTGTGTCTTTTAACTACACTAATGAAAACAAAGCAAATATCTAGATGCTAAATCATGCAAATAAAGCAGGCTGTTTCAAAGTGTAATTAACGTTCGAACTATTCTTGAAG
Seq C2 exon
TCTACACACAGGAGCAATGCTTAAAAGCTTCAGTAAACACATGTGGAGACTGCATCAAGTCTGGACCTGGCTGTGCATGGTGTAAAGAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016939:ENSDART00000149704:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0036213=Integrin_beta=PU(4.1=54.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]