RnoINT0076361 @ rn6
Intron Retention
Gene
ENSRNOG00000048449 | Itgb3
Description
integrin subunit beta 3 [Source:RGD Symbol;Acc:628868]
Coordinates
chr10:92705168-92706986:+
Coord C1 exon
chr10:92705168-92705302
Coord A exon
chr10:92705303-92706556
Coord C2 exon
chr10:92706557-92706986
Length
1254 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
AATGTCGTCTTTCCGTCCAGGTG
3' ss Score
10.06
Exon sequences
Seq C1 exon
AAAATCCGTTCTAAAGTGGAGCTGGAAGTGCGTGATCTCCCCGAAGAGCTGTCGCTGTCCTTCAATGCCACCTGCCTCAACAACGAGGTCATCCCAGGCCTCAAGTCTTGTGTGGGCCTCAAGATTGGAGACACG
Seq A exon
GTGAGGAGGTGGGCTAGGGAAGGGACTGACCATGGGCCCCGAAATCTGTGTGTACCCTGACCCTTTCTGGAATTAGACGTTAAAGTAGTAGAATTGCCAATCTTTCCCCTCGAAGTTTCTGATGCCTAAGGTTTCTATAGCTGCCAAGCAAACCCTTATTTCAGTTTGTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTAAAGAACATCTATTTTGATTTTCCATGTTTGCACCTGCGCATCTGATGGAAAATGAAAATACTCCTTAATCTATTCACCCAGGGTAATGCATTTCTTTTCTCTGCATCATAAAATGGGGCAGTACAGCACCTGTGGACTCCTCTGAGCACTGACTGCACCAGGTTTTATTCTGGCTGACGGAAATCCAACAACAAGTGGAACAGGCAAAAATGTCTGCCCTCTTGAGACTTAAGAGTTTAAACGTTCATCTTGCACCACCATCCCCTCCACAGTTTTCTTCTTATTTTTTAATTTTATGTGTATAGTTATTCTGCCTGCATGTATATTTGTGTATCACACATGTACCTGGTACCTGTGGAGGCTGGAATCAAGTATCAGATTCCTTTGAAATGGAGTTACAGATGGTTGCAATAGGCTGTGTGGATAGTAACCCGGGTCCTCTGGAAGAACCGCCGGTGCTCTTAACCTCTGAGCCATCTCTCCAGCTTCTCTGGTTTTCTTTGCTGGTTCTCCTCTACTCTACCTAACGGACTGGTAGATGGGAGAGAGGAATGAAAAGAAATAGGTCTTCCGGTACCCTATAAATTTATAAGCACACGTGTTCCCACCCCATACTACCTGCCCTGCAATAAAATGCTACATAGTAATCTCTGTTCACCATTGACCTCTGTAGGCGTGGTGTGATGCAAAGCAACATTTTGTGTGTCTTGCTGTTACTATGTTACAATATTACTCCAGCCGGCGTGGTTGGCCAGAGCGAAATGCTCACAAAATCACAGCTTCTGTCCTGCTTGAGCTGGTTTATTTCTCTTCTATTGCTTGTCTTTAACTGTCCAGTGAGATGTACCCCAGTGGTATTATTACTGCTGTGCCAGTGTAGCGTTTACTCTGTAGTTTGATAGAATGAAGGTGAGGAACTCCCCTGGGCAGGTGGATCTGACACCTAATTTTGTTGTCCTTGGAAGGTTGCAGCATAGCATTTCTTCTGGGCCTGGTGTTACCCAGATCCACTTGGGTCTGAATGTCGTCTTTCCGTCCAG
Seq C2 exon
GTGAGCTTCAGCATCGAGGCCAAGGTGCGTGGCTGCCCCCAGCAGAAGGAGCAATCTTTCACTATTAAGCCTGTGGGCTTTAAGGACAGCCTTACAGTCCAGGTGACCTTCGACTGTGACTGTGACTGCCAGGCCTTTGCCCAGCCTCTCAGCCCACGCTGCAACAATGGTAACGGAACCTTTGAGTGTGGGGTGTGCCGCTGTGATCAGGGCTGGCTGGGCTCCATGTGTGAGTGCTCCGAGGAGGACTATCGACCCTCTCAGCAGGAAGAGTGCAGCCCCAAGGAAGGCCAGCCCATCTGCAGCCAGCGGGGCGAGTGCCTCTGTGGCCAGTGCGTCTGCCACAGCAGTGACTTTGGCAAGATCACCGGCAAGTACTGTGAGTGTGATGACTTCTCCTGTGTCCGCTACAAAGGGGAGATGTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048449:ENSRNOT00000073350:9
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:
PF0036213=Integrin_beta=FE(10.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.5=27.8),PF079748=EGF_2=WD(100=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGTCGCTGTCCTTCAATG
R:
GGTCGATAGTCCTCCTCGGAG
Band lengths:
346-1600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]