GgaINT0047770 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17228955-17231620:-
Coord C1 exon
chr7:17231489-17231620
Coord A exon
chr7:17229166-17231488
Coord C2 exon
chr7:17228955-17229165
Length
2323 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
TGCTTCTTTCTCTGTTAAAGGTT
3' ss Score
10.04
Exon sequences
Seq C1 exon
GGGTGGTTCGTGCAGAGCAAAAGAATCAGACATTTTATGATCTGGGTATCTTTGATGATGGGCCTTACGAAGTTGGTGATGAGAGCCGCCAAGATAAGAATCTAGTTCCTGTTCCAGCTAACAGTTATTTAG
Seq A exon
GTAGGACAAAGTACATATGGTAAATCTCTTTAGGCTTCTTAAACATTTATGATCTTGTCTGATGCAATAATATGGAATGGGAGGAGAAAGCTGTTTATGTGAGGACCCTGTGAAATGTGAATTGTTTAGGATAATGCACATCTTCCTCCACATTTACGTATAAGATGGTACTTTGCTGAGGTACCTAGAAGTGCTGCTAAAGGAATAAGATATTTAAGAGTGATAATGAAGACCTACACATTCTCAGGGAATGATTATAATCACTGTCTAATGGTAAGTACCATGTTTAGATCTGTAATCCTTAGTCACAAGGTCACTGCTATGTGGTATCAAAAACTAACATTTTGAGTCATACTAACATTTGAGTTTCTGAATGTAATTTTCTCACCAGAGTGTTTTGTTTTTTTTTAATTGAAGATTTTAAGACCACAGTGGCCTTTTTTACAGGCTTTTAAAATACTGTAACATGAGTAATGTTAATGTTTTAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCACGTTGCAGAGGAGAGTCTTGAGCTTTGTGCAAACATAAAAGCAAACATATGTCCTTAGGGTAATGAATATTCCTGTACACTTGCAAGATAAATTGGTAAAGAGAATAGGTTACTCTCCATTTCTTAGAATGCCTCTAGTGCAATGTGTAACTAACATTTCTGCTCTAGTACAGGTTTTTGTGCTATACTAATCTAGTGCTTTTGGCTTAGGCAGCAGATATAATTTTAGTAACTCAAAGCTGGAATTTCTGTGTTAATAATGAGAAGTTGAAAGGAAAGATGTTAATATGAAAGCAAGCTGAGTAAAGAGCTAAATTAGAGCTGCATGTCTATTAGAAGAAATAAACTTGAGCTAAATGTGAGTAGTGGTTACTGGGTGTAAAAAAATCCTAGGAGCTTATTTCAGAAAGGCAAGCTGATGGCCTTTTCATGTGGAAGAGTAGTACTGTAGCGGTGTCTTGCTGTAAACAGTTTACTGTGTGTGTGTCTTCCTAACTGAACTTCTGCAATTCATAATAAATGCAATGTTGCATTTATCTAACTATAAATGCTGCCTTTGATATGTCATAATCAAAACTACTTGAAGGCAAGGCCAGCATTCCCTAGCATAGCCGATCCCTATATTTAGACAATAACTATGTGTGGTTATAGCTGCTGTGTTCAACTTCTTTGTCTTTTCAATCTTTCACTCATATGTTTACAGGTCTTCTATTTTTGACAGCAGTATCTGATACTCATCCAGATCAGTTTGTATACAAAACGTTGCCTCCCAGCATACAGGTGGACAAATCAGTGGATGTAATGATGAATAGCTACTTAGGTTTGTGACCACCTCAGGTGGCAGCATCTGGTCACACAATCTTCAGACCTTTAACATGATACTCTCCTTTCCATCCTCATTACAAATACATTGCAAATAAAAGCATGTGACAGCAGGGATTCAGATGAAGAGTAACTTGTAAAATAAGCTGGCTTCAGAGAAGCACTGGTGTGTGATGCGTTTCTCCAGGCCTTCTCATCTCTCCCTTAAAGTGGACTCTTCCTGATTTTTTTTTTTTTTTTAAACTGTCTCATTGTGAATTGCTGTAATTGAGAATTTCAGTAGTAGTGGTGAACTGTTTCAAAAGGGAGATTACTATCTGCTGGCTGCTATTTTCTTCCTTGCAGTGTGCATCATCTCACTTTGAGCTTTATTGACTATGTCGGTACATGCATTATATTGTTTTAATGTACTTTTAAATCTATTAACTTTATACAGATACTTAAGACTAAATTCATTCAGACACGTCCCTTAGAGCTGCATTAAATTAAAATTGCCCATTTCGCCACTACTGGATAAAGTGATTCTCAAATACCGTATTACATCATTTAATGTATGTTAAGCATGTACAGTACATCTTGCATGTTTGCAACGGAGTTTATTGACTTGTACATAGAAGTTTTATAATGATTTTGTTGAAGGTGAAGTACTCAAGCTATATTCAAGTGGTAATGTTTAGTCCTTTCTAAGCCAATATGTTTTAAAAAAAATTATCTTGTATTTACTGTGTGCAAAATGGAGACCTGAGTGAGCAATGAAACAGTATATTTTGTGGGGGAGATAACTTAAACGGAATATATTGAAAGAGTGTAAACTTTTAAACACACATCCGCCAGTTCAAAGAGAACATAGAATTGCCAGTATATCATACTCTGCTTTAGAAAACTTCTATTCAATATGCCACTTTAATATAGTAGGGTAATTTACTTTTCCTGTTAACAATACGAGCACTAAGTTGTTTGCTTCTTTCTCTGTTAAAG
Seq C2 exon
GTTTCTCTTTGGATTCTGGTAAAGGAATTGTCTCCCAAGATGAGATGACTTTTGTGTCTGGTGCACCAAGGGCCAACCATAGTGGAGCAGTTGTTTTACTGAAAAAGGAGAAAAATCAGAGAGCGCTTTCACTGGAGCACATGTTCGAAGGAGAAGGGCTGGCCTCTTCTTTTGGTTATGATGTGGCCGTTGTGGATCTGAACAGTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.8=7.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]