DreINT0083051 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3485783-3489132:+
Coord C1 exon
chr9:3485783-3485976
Coord A exon
chr9:3485977-3489037
Coord C2 exon
chr9:3489038-3489132
Length
3061 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TCTTCTGGCTCGTCTGTTAGATA
3' ss Score
7.51
Exon sequences
Seq C1 exon
TTGGCAGGATGTTGTGGTCGGTGCGCCTCAGTTCTTCCAGAGGGATGAGGAAGTTGGTGGAGCTGTGTATGTTTACATCAACAAAGCCGGACGGTGGCGGGACGTCACTCCTGTTCGCCTTAATGGAACCAAAGACTCCATGTTCGGTCTGTCTGTGGAGAACATTGGAGACGTTAATCTGGATTCATTTGAAG
Seq A exon
GTTTGTTGAAGCTGATTTTTTTTATGATTTGATTAGTTTAGATTGAGTAAGGATTAGTTAATCCAAATCAAAATTCTGGTTTTAATTACTCACCCTCATGTTAATCCAAATCCTCTGAGACCTTCGTTCATCTTCAGAACACATATGAAGATATTTTGAGATGAAATAAGAGAGCTCCCTCATCCTCTATAGACAGAAAGGATCCTGAGACATTCGAAGTTTAGAAAAAGAAACATTGTCAAAACAGTCTCATGTGTCTTCAGCGGTTCAACTGTAATAATACGAAGCTCCAAGAACACTTTTGTGCACCAAATAAAAAGGTTTTGCTATATCTTCTCTTCTCATCAGGTCCCCAATGTCTATGTTTACTACGGTCAATACAATGTACTGCCATTGAAGGCCCCGGGATGCTTCAATGAAAATCAAAATCATTTTGAACAAAATCCAGCCAAAACGAAGTTCTTTTTGAATTTGTTTCAGCAGTCGGAAACTGCTCACCAAAGCAAACTTTTGGGGGATTGAGTTTTAACTCCAAAACACCTGTGAGCTGTCATTGGTCCATTGCGTTTACACAATCGGTGGGTGTGTTTTGGAGCTCCGACTGCTTTGGTGAACATTTACTTCCACCCTAAAATTCGTTTCTCATCCTATGGAGGTCAGACACAACACCAACATTTGTAGCGTAGAGCTGAATTTTCAAAAACACTCAGCTGTTTATAATTTCTTTTTGCTCCCAAAAGGAAAATGAAAAGTTGGTTCTTTCATTACATTTGAAGTATACTGGGGCTTCAGTTTCAGTCTGTTAGTTTGAATTATCTTTATTAGCTAGTGTACTCTAAAACTGACAAAATTTGCGTTTAGAAGATACAAACCTAATATAAACATCCAAAGCTTGTAGTTTGTCACTTGCGCCTAAATCAATAGTTTTTTTTTTCCACGTCTCCTCATGCTTCAGTTTCTCTTCAAATCTTGACCAATCAAATGCTCTCTAGTATTTTACATGCCCTGGCCCTTTCTTCTCATTTGTTTTTTATTTGATGCACTTGAACTCGATTATTCTCACTGGCAGAGCTGTGATAAAACAAAACAATATTGGCTAGTTTTTTAAAAGGGGAGGAGCTACTCTATGTCCCGCCCTCTCCATGTTTTAGTTGAGATTAAAAGAATCAAACATCGAATCAAAAAATGCACATTTTAAAGCACTTCATGGCACCTTTAAGCCACAGTCACTCTGCATGTTTCCACATTGGCTTCCATTCATACGCATGCGAATGCACCAGACCGGAACTTCAAGCTCATTTGACAACTTTCGCATGTTGCTGCGATGTTCAATCTTGCTGAACTCTGACCTGTAAAATCACTTCATGTAGTTGCATGCTACCAATAGAAGATCAAAACGTGGCCTCTCTGTACAGAAATTAAAAATATAGAGCAATCGCTTGTTTTATCAGTGTCACACAATCTTATTTTATCCCACCTTTTTAACAGCACCATCTAACCGAATTTCGCATTAATTTTGCAAGTGTCATGTTGACCGTAGTATAAAACTTGCACACTGATATGATGCAGAAGATTTAGGCAGACAAAGTCGTTTTACAGATTTTTTGGTGCACAAAAGTATTCTTGGAGCTTCGTATGATTACAGTTGAAGTCACCTGGAATGTTTTTTTTTGGTTGCTTTACTTGACTTGGAACTCTATAGAGCATGAGGGAGCTCTCTTTTCATCTAAAATATGATGATGAACAAATGTTTACCAATTAAAATGATACAACCCCAAATCAGAAAAAGTTGGGACAATATGGAAAACGCAAATAAAAAAGAAAGTAGTGATTTCTGAATTTACTTTGACTTTGATTTCATTGCAGACAATACAACAAACATTATTTAATGTGTTCCTCATCATTTATATAGTTTCAACAGGTGATTGTAACTATGATTTGGTACAAAAGCAACATTCAAGAAAGGTCTAGTCCTTTAGGAGCAAAGATGGGCAGAGGATCGCCAGTTTGCCAATAAAGATGTGAGAAAATGATTGAAATGTTTAAAAACAATGTTCCTCAAAGAAAGAGAGAAAGAGATTTGGATATTTTACCTTCAACAGTGCAGAACATCATTAAAAGATTCAAGAAATCTGGAGGAATTTCAGTGCGTAAAGGACAAGGGTGCAAGCCTAAGCTGAACAACCGTGATGCCTGATCCCTCAGGCGGCACTACATCAAGAATCCTCATTCATCTATAAGCGATATCACCACATGGGCCCAGGACTACTTTGGCAAACCTTTGTCAAGTACCACAATACTTAGTTACATCCACAAACGCCAGTACAAACTGTACTGTGCCAAAAGGAAGCCCTATGTAGGGGGAAAAGGAAGCCCTATTAAAGGGGGAAATGAAGCTTTCAGTCAAGTATATGTTATTTCAGGTAGTTTACGTCAGGCAGCGTAATACAGAGTGGACCAAAGCGCATCAACTGATCGGTAAATAAATGGGAAAAAAGGAAAAATTTAATAAATATATATTTTTATATTAGACACACATCTGATGCTTGTATTTGCTCCAGCTCCACCTCCACAACTTCACACATTGGGTTAAATTAGGCTTTGCAGTTTCCGTGTTCAGTCCATTCCTTCCACCGTACCTGTTCAGTGGAGGGAACAGAACCAACCCCGTGATGTCAGACACATTGACGTTCCAAAATGGCGTCGCCCTAGGTCTAAAAGCTGTAGTAAAACATGCCGTTTTCTTATAAATGGTTACATTAATCGAGTTTGTTTAATACATTTTCATTAAAGTGGAATCCAATGTACAAAATAACGTGAACTTGACTTACTGCTTTATTTTTCTTTTTAAGTGTTGTGAAAAGGAATGACAACATTACAAAACTTTTTTGAAAAGTGTTGCAAGAACCAACATTGGAGTACGTGTTTATTTAAAAAAAAACTATAAAAATCATCAAAGCACATCAAAAAGATTTGGGGTTATATAATGATGAGTAATTAATAAAATAATCTTCATTTTTGCATCAACTAACGCTTTACATTCTTCTGGCTCGTCTGTTAG
Seq C2 exon
ATATTGCAGTAGGCGCTCCATATGCAGACTCAGGATTTGGCAGCGTGTACATCTACCACGGATCTGCTGACGGCATCAGTACCAAACCGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=PD(64.1=37.9),PF0183918=FG-GAP=PU(36.7=16.7)
A:
NA
C2:
PF0183918=FG-GAP=PD(60.0=56.2)
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]