DreINT0083049 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3505531-3508561:+
Coord C1 exon
chr9:3505531-3505629
Coord A exon
chr9:3505630-3508435
Coord C2 exon
chr9:3508436-3508561
Length
2806 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CGACTAATTTTCATGCGCAGGTG
3' ss Score
8.98
Exon sequences
Seq C1 exon
GATTTTGCATCCTACAATTACCTTGATATCATAGTGAAAGCCTCCATAAGTCTTGATGTTTCTGCCAAGAATATCGTCCTGAAAAATCCTGAAACTCAG
Seq A exon
GTAACTTGGTTTCCAAAAAATGAAAAGTCTGTCATCATTTGCTCATCCAAACATGTTTCTTTCTTCTGTTGAACACAATATATACTGAAGGAAAAACAGCCAATGACTTTAATAGTATTTTTTGTCCTTACCATAGATGTCAACGGCTGCTTATTGACCAGGATTCTTAATATCTTGTTATTCTCAATATCTTGTTTTGTGTTCAACAGAAGAAACAAATTCATAAAATAGTTGCATTAATCCTGTGTTCACACCAGATGCGTCTTGCATAAATAAATTGCCCTATTCACACATAAATAGATGCACGAACATTTTGAGTTTCCTCGCGTCATTCGCGCATCAAATTTGCTCATGAAATTCACTTCACAATAGACACGGATTCGCATAATGGGCAGGGCTTCTGTCTGCTGTGGGCTGGGCATCATGGGCAGGGTTTCTGCCTTCTGTTAGTGGCCCTAGTTTCGTTGCTAAATGCATGACATGGATTTGATTGAGAGCGTAGCTGCGCTTTAGGAAGGCTTATAAACAGATTCGTTTGCCGTCGTGTCTGAGTCCACTAGATCCTTTCAGAGGTGCACCCAGCTCTGTGAGTTCATCAACTCCTCCAGAAACTGTACCTGGATGATAGAAGCTTTCAGTGGTGCTTCTGACTGAGCCCAGCCCAGTTTGATGAGCTGTTGTCTGGTGTCGACAGGAGGATTTTCCATCGGGACAACAACAACAGGCGCTACATCATAATCATGCCCCTACAAGAGCAAGCTTCTGATTGGTTAACGTGTCACGAATGCCTGATAAAGTTCAGATTTTCCAACTCAATTTTTCAAGGCACAAAAAGCTCTATTCACGCTACCTCATTTAGGATGTATATTTGCCTCTTTGCATGGACTTTACATGTAAATCACCTGCACTTGACACTTCATTTGCGTCTGGTGTGAACACACCATAAGAATCCAGCCTTTCTAAATCCCACCCTTCTGAGAGTCTGCTTTGATTGGTCAAATAATTAGCCCATTCTGTTGTGACTGGTTGTGAGCACGGTATTAGTGAAACCAAGCTTATGTGTTTGCAGGGCCGGCGCGTCCATAGAGGCGACCTAGGCGGCCGCCTAGGCGCCTTAGTATAGAGAGGGCAGCGTCACGACACCTCCCTTACCCGAGTCCTCAGTTATGTCCGCAACACCTCCCTCACCACCCGCGTCCTCAGTTATATTCACACATAGGCGACAGAATAGAGAGGGCGGCATCAGCGACACCTCCATCAGCAGTCGCGTGAAGTTATATCTGCACATAGAGCAGCAGAATAGAGGTCCGCGACACTCGTGCGTCCTCAATTATATCCGCGCATGTTGCGGCAGAATAGAGGTCCGCGACACCTCACTTAATTTTCATAACCGGTCACTTGCGTTTTCACATTGGGGTTGAGGGCGGCGTGATTGTCCTCTGCCTAGAGCGGCAGTTCAGCTTGCTCCAGCGCTGTGTGTTTGATTCCCAGGGAAAACAAGAACTGATAAAAATGTTTAGCTTCAGTGCTATTGGATAAGTCAATGTAAAATTAAGCTGTGTATAAAAGCATCTTACAAATATGTAAATTTAAATCTACAGTGTTTGAAGTCAGCATGAAACAGAAGTTGTGATAGTACTTTTATTTAATCTTATTCTGACATGAAACTGCTTCTGAAATTAGAAAAAAAGTAGAACGGGGCTTGATACTGTCCTTTGGGTAATTGGTTGGATCATTGAATGTTTTGTGTTGCTAAACTTGGTGTTACAATGTAAGATGCTAATGTTAGCATCTAATGTAAGATGCTAATATTAGCTAATGTTTACATTTGTAATATTTATACTTCTTGCTAATTAAAGACCACCTCATGGGGATTTTTATAACTCTGAATCCGCGTCTCAGTTCGGAGACTGCTACTGTCCGCTAGAGCTCGCGTTTTCGGCCGCAGCTGCAAACATTAAGACAGCTTTCAAGACTAAAATGAAATACAGTAGCTGCGTCCCAAATCGCATTCTTATGCACTATTCTACGTCATTTTGTAGTATAAATAGTGTAAGTAGTGTGTTCACACTGAAAACTCTAAAAATAATAAGTGCACTTTAATTACCCGGATGATGCACTCATTCAGCCAGTAAAATGAAGTGTGTAATGATGGACACTTCACGCACTCAATGACCACAGGTTTGCTTATGTAGCGGAAGGGGCGGAGCTATCCGGCGCACATGTTGGATAACTTTATTTATTTTGGATGGTTAAAGCAATATTCTCCTACGAGAGTGATTATAGCGCCTCCCGATGGTAAATGCGGTTATACTCACGGCAGGTATTATCTGATAATTCGGTCGTTTATTTCACTGATTTGGCAACCGTCAAACGTCATCAGGGAAACGGTTTGAATTTCCACTTAGTAAAAAAACATTAGTGCGCCATTTGGGACGACACTACATACATATACTATCCTGTTGAGTGTGGAAGTGCATAAGTACATAGTGCATGAGTGCATAGTGTATAGTGTGCCATTTGGGACGCAGCTAGTGTGTTTTCCACCAAGGCAACCTAGGATGCTGAAATATAATTGAGTAAACTGGCAGTGGGCTGGTTAGAGAGACCGAAACAAAGACAGACATTCTGATACTAAACGCACATTTTCAAAGCAGAAAAACTGACTTTAGCATTGCTTTTAAGATAAACTGAAAAAAAGTACTTTCACTTAGCATGTTACGTACATATCTGCAAACATATTGTGGTATTTCTATGATTTAGAAGAGTCAAAAACTTAAATTAAACGACTAATTTTCATGCGCAG
Seq C2 exon
GTGAGGTTGACGGTGTTCCCGGAGACGACAGCGACTCCGTTTGGAGGAGTGCCGTGGTGGATCATTCTAGTGGCTGTGTTAGCTGGAATCCTAATGCTGGCTCTCTTAGTTCTGCTACTCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:23
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:
NO
A:
NA
C2:
PF151761=LRR19-TM=PU(56.2=85.7),PF0035715=Integrin_alpha=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
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]