DreINT0083288 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13087622-13088254:+
Coord C1 exon
chr8:13087622-13087747
Coord A exon
chr8:13087748-13088147
Coord C2 exon
chr8:13088148-13088254
Length
400 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GAGTAGTTTTTGTGTGCCAGATT
3' ss Score
4.17
Exon sequences
Seq C1 exon
ATAAAAATGTAATCGAGACATGCAGTTTCCGTGATGAAGATGATGACTGCACATATCACTATAATGTGAATTATCCATCGAACATCACAGACAAAGAACACCGCGTCCTAGTGAAGAAAAAGAAAG
Seq A exon
GTGAGATATATATGAATAATAACTGTACTTTTATTATGATAAAACTAAGATTTATGTGGTTTGGTAGGCGTGTTGGTAAATTTTAAACAGATTCTCATCCAGTGCCTATAGAGAATCATCATACCCTGTGAAAATCTATACCTTTACACCCTGCTTTCAAAAGACCTTTGGGATGATGTTATAGAAAGGCACTGGTTAGGAGAAGGCTACAAAAACATTTCAAAGGCTGGAAAAGATTAGATTTCAGGCTTTATAACAAATTAAGTAAATATTTCAAATAACTGAACTGTACATAAATATCATTATTTAATTACTAAAATTATAATATAACTGCAGTTTTAATTGCCCCAATGTAGTTATGTGCACTACGTTATCTAACTGAGTAGTTTTTGTGTGCCAG
Seq C2 exon
ATTGTCCACCTGCAGGTTTCCTGTGGCTCATTCCTCTCATTATGTTTCTGATGCTGTTACTTGGTTTGCTTTTGCTCTGTTGCTGGAAATACTGCGCCTGCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(48.3=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(6.9=16.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAAAATGTAATCGAGACATGCAGT
R:
GGCAGCAGGCGCAGTATTTC
Band lengths:
230-630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]